Variations missing after update, also not able to delete

I’m using WooCommerce and the Subscriptions extension to create variable subscription products. The client was previously using an older 2.x version of WooCommerce and after the recent 3.x updates, all of the Variations for this product disappeared.

I manually added the variations back, which seemed to work ok at first, then I noticed a couple issues:

First, the actual Product page is loading extremely slowly now and shows a spinner for around 5 seconds. We have around 40 variations for this product but I’m assuming that shouldn’t be enough to slow the page to this extent.

The second issue is the variations can’t be deleted now. When I click the “remove” link and save the page, all of the same variations are shown in the editor again.

There seems to be some sort of data bug that’s happening. I can confirm that we’re running all of the latest versions of WordPress and the plugins. The previous developer did modify quite a few of the WooCommerce files, including the variable-subscriptions.php file (the edited versions are in the theme’s folder). However, I’m not sure these would be related to the issue with not being able to remove variations in the admin editor.

One other additional clue: occasionally, the Product page itself will show an “internal 500” error in the console and mentions something about ?wc-ajax=get_variation. Unfortunately, I can’t reproduce this error consistently but I have seen it a few times during testing after the 3.x updates.

I realize this is difficult to troubleshoot but any advice on where I should look to find the problem would be greatly appreciated. Thank you for your time.

System status report below:

### WordPress Environment ###

Home URL: redacted
Site URL: redacted
WC Version: 3.0.6
Log Directory Writable: ?
WP Version: 4.7.4
WP Multisite: –
WP Memory Limit: 256 MB
WP Debug Mode: –
WP Cron: ?
Language: en_US

### Server Environment ###

Server Info: Apache/2.4
PHP Version: 5.6.29-0+deb8u1
PHP Post Max Size: 8 MB
PHP Time Limit: 30
PHP Max Input Vars: 1000
cURL Version: 7.38.0
OpenSSL/1.0.1t

SUHOSIN Installed: –
Max Upload Size: 8 MB
Default Timezone is UTC: ?
fsockopen/cURL: ?
SoapClient: ?
DOMDocument: ?
GZip: ?
Multibyte String: ?
Remote Post: ?
Remote Get: ?

### Database ###

WC Database Version: 3.0.6
WC Database Prefix: redacted
woocommerce_sessions: ?
woocommerce_api_keys: ?
woocommerce_attribute_taxonomies: ?
woocommerce_downloadable_product_permissions: ?
woocommerce_order_items: ?
woocommerce_order_itemmeta: ?
woocommerce_tax_rates: ?
woocommerce_tax_rate_locations: ?
woocommerce_shipping_zones: ?
woocommerce_shipping_zone_locations: ?
woocommerce_shipping_zone_methods: ?
woocommerce_payment_tokens: ?
woocommerce_payment_tokenmeta: ?
MaxMind GeoIP Database: ?

### Security ###

Secure connection (HTTPS): ?Your store is not using HTTPS. Learn more about HTTPS and SSL Certificates.
Hide errors from visitors: ?

### Active Plugins (28) ###

Add Logo to Admin: by c.bavota – 1.6.2
Advanced Custom Fields: Nav Menu Field: by Faison Zutavern – 2.0.0
Advanced Custom Fields PRO: by Elliot Condon – 5.5.13
All In One WP Security: by Tips and Tricks HQ
Peter
Ruhul
Ivy – 4.2.7

Breadcrumb NavXT: by John Havlik – 5.7.0
Eggplant 301 Redirects: by Shawn Wernig https://www.eggplantstudios.ca – 2.3.0
MailChimp for WordPress Lite: by ibericode – 2.3.16
New User Approve: by Josh Harrison – 1.7.4
Password Protected: by Ben Huson – 2.0.3
Simple Custom Post Order: by Colorlib – 2.3.2
UpdraftPlus - Backup/Restore: by UpdraftPlus.Com
DavidAnderson – 2.13.1.1

User Role Editor Pro: by Vladimir Garagulya – 4.32.3
Visual Form Builder: by Matthew Muro – 2.9.2
WC Variations Radio Buttons: by 8manos – 2.0.0
Webgility: by Webgility – v331
Widget CSS Classes: by C.M. Kendrick – 1.4.0
WooCommerce Dynamic Pricing: by Lucas Stark – 3.0.7
WooCommerce Intuit Payments Gateway: by SkyVerge – 2.0.1
WooCommerce Packages Mapping: by Bartek Makowski – 1.0.0
WooCommerce Quick View: by WooCommerce – 1.1.8
WooCommerce FedEx Shipping: by WooCommerce – 3.4.5 – 3.4.6 is available
WooCommerce Shipping Per Product v2: by WooThemes – 2.2.8
WooCommerce - ShipStation Integration: by WooCommerce – 4.1.14 – 4.1.15 is available
WooCommerce Subscriptions Gifting: by Prospress Inc. – 1.0
WooCommerce Subscriptions: by Prospress Inc. – 2.2.6
WooCommerce: by Automattic – 3.0.6
WooCommerce Helper: by WooCommerce – 1.7.2 – Network enabled
wpMandrill: by Mandrill – 1.33

### Settings ###

API Enabled: ?
Force SSL: –
Currency: USD ($)
Currency Position: left
Thousand Separator: ,
Decimal Separator: .
Number of Decimals: 2
Taxonomies: Product Types: external (external)
grouped (grouped)
simple (simple)
subscription (subscription)
variable (variable)
variable subscription (variable-subscription)

Taxonomies: Product Visibility: exclude-from-catalog (exclude-from-catalog)
exclude-from-search (exclude-from-search)
featured (featured)
outofstock (outofstock)
rated-1 (rated-1)
rated-2 (rated-2)
rated-3 (rated-3)
rated-4 (rated-4)
rated-5 (rated-5)

### WC Pages ###

Shop base: #6 - /shop/
Cart: #7 - /cart/
Checkout: #8 - /checkout/
My account: #9 - /my-account/

### Theme ###

Name: redacted
Version: 1
Author URL: 
Child Theme: ? – If you're modifying WooCommerce on a parent theme you didn't build personally
then we recommend using a child theme. See: How to create a child theme

WooCommerce Support: ?

### Templates ###

Overrides: redacted/woocommerce/archive-product.php
redacted/woocommerce/cart/cart-empty.php
redacted/woocommerce/cart/cart-item-data.php version 2.1.0 is out of date. The core version is 2.4.0
redacted/woocommerce/cart/cart-shipping.php version 2.3.0 is out of date. The core version is 2.5.0
redacted/woocommerce/cart/cart-totals.php
redacted/woocommerce/cart/cart.php version 2.3.8 is out of date. The core version is 3.0.3
redacted/woocommerce/cart/cross-sells.php version 1.6.4 is out of date. The core version is 3.0.0
redacted/woocommerce/cart/mini-cart.php version 2.1.0 is out of date. The core version is 2.5.0
redacted/woocommerce/cart/shipping-calculator.php
redacted/woocommerce/checkout/cart-errors.php version 1.6.4 is out of date. The core version is 2.4.0
redacted/woocommerce/checkout/form-billing.php version 2.1.2 is out of date. The core version is 3.0.0
redacted/woocommerce/checkout/form-checkout.php
redacted/woocommerce/checkout/form-coupon.php
redacted/woocommerce/checkout/form-login.php
redacted/woocommerce/checkout/form-pay.php
redacted/woocommerce/checkout/form-shipping.php version 2.2.0 is out of date. The core version is 3.0.0
redacted/woocommerce/checkout/payment-method.php
redacted/woocommerce/checkout/payment.php
redacted/woocommerce/checkout/review-order.php
redacted/woocommerce/checkout/thankyou.php version 2.2.0 is out of date. The core version is 3.0.0
redacted/woocommerce/content-product.php version 2.6.1 is out of date. The core version is 3.0.0
redacted/woocommerce/content-product_cat.php version 1.6.4 is out of date. The core version is 2.6.1
redacted/woocommerce/content-single-product.php version 1.6.4 is out of date. The core version is 3.0.0
redacted/woocommerce/content-widget-product.php version - is out of date. The core version is 2.5.0
redacted/woocommerce/emails/admin-cancelled-order.php version 2.3.0 is out of date. The core version is 2.5.0
redacted/woocommerce/emails/admin-new-order.php version 2.0.0 is out of date. The core version is 2.5.0
redacted/woocommerce/emails/customer-completed-order.php version 1.6.4 is out of date. The core version is 2.5.0
redacted/woocommerce/emails/customer-invoice.php version 2.2.0 is out of date. The core version is 2.5.0
redacted/woocommerce/emails/customer-new-account.php
redacted/woocommerce/emails/customer-note.php version 1.6.4 is out of date. The core version is 2.5.0
redacted/woocommerce/emails/customer-processing-order.php version 1.6.4 is out of date. The core version is 2.5.0
redacted/woocommerce/emails/customer-reset-password.php
redacted/woocommerce/emails/email-addresses.php version 2.2.0 is out of date. The core version is 3.0.0
redacted/woocommerce/emails/email-footer.php
redacted/woocommerce/emails/email-header.php version 2.3.0 is out of date. The core version is 2.4.0
redacted/woocommerce/emails/email-order-items.php version 2.1.2 is out of date. The core version is 3.0.0
redacted/woocommerce/emails/email-styles.php
redacted/woocommerce/emails/plain/admin-cancelled-order.php version 2.3.0 is out of date. The core version is 2.5.0
redacted/woocommerce/emails/plain/admin-new-order.php version 2.0.0 is out of date. The core version is 2.5.0
redacted/woocommerce/emails/plain/customer-completed-order.php version 2.0.0 is out of date. The core version is 2.5.0
redacted/woocommerce/emails/plain/customer-invoice.php version 2.2.0 is out of date. The core version is 2.5.0
redacted/woocommerce/emails/plain/customer-new-account.php
redacted/woocommerce/emails/plain/customer-note.php version 2.0.0 is out of date. The core version is 2.5.0
redacted/woocommerce/emails/plain/customer-processing-order.php version 2.2.0 is out of date. The core version is 2.5.0
redacted/woocommerce/emails/plain/customer-reset-password.php
redacted/woocommerce/emails/plain/email-addresses.php
redacted/woocommerce/emails/plain/email-order-items.php version 2.1.2 is out of date. The core version is 3.0.0
redacted/woocommerce/global/breadcrumb.php
redacted/woocommerce/global/form-login.php
redacted/woocommerce/global/quantity-input.php version 2.1.0 is out of date. The core version is 2.5.0
redacted/woocommerce/global/sidebar.php
redacted/woocommerce/global/wrapper-end.php
redacted/woocommerce/global/wrapper-start.php
redacted/woocommerce/loop/add-to-cart.php version 2.1.0 is out of date. The core version is 3.0.0
redacted/woocommerce/loop/loop-end.php
redacted/woocommerce/loop/loop-start.php
redacted/woocommerce/loop/no-products-found.php
redacted/woocommerce/loop/orderby.php
redacted/woocommerce/loop/pagination.php
redacted/woocommerce/loop/price.php
redacted/woocommerce/loop/rating.php version 2.0.0 is out of date. The core version is 3.0.0
redacted/woocommerce/loop/result-count.php version 2.0.0 is out of date. The core version is 3.0.0
redacted/woocommerce/loop/sale-flash.php
redacted/woocommerce/myaccount/form-add-payment-method.php version 2.1 is out of date. The core version is 3.0.0
redacted/woocommerce/myaccount/form-edit-account.php version 2.2.7 is out of date. The core version is 2.6.0
redacted/woocommerce/myaccount/form-edit-address.php version 2.1.0 is out of date. The core version is 3.0.0
redacted/woocommerce/myaccount/form-login.php version 2.2.6 is out of date. The core version is 2.6.0
redacted/woocommerce/myaccount/form-lost-password.php version 2.3.0 is out of date. The core version is 3.0.0
redacted/woocommerce/myaccount/my-account.php version 2.0.0 is out of date. The core version is 2.6.0
redacted/woocommerce/myaccount/my-address.php version 2.2.0 is out of date. The core version is 2.6.0
redacted/woocommerce/myaccount/my-downloads.php
redacted/woocommerce/myaccount/my-orders.php
redacted/woocommerce/myaccount/view-order.php version 2.2.0 is out of date. The core version is 3.0.0
redacted/woocommerce/notices/error.php
redacted/woocommerce/notices/notice.php
redacted/woocommerce/notices/success.php
redacted/woocommerce/order/form-tracking.php
redacted/woocommerce/order/order-again.php
redacted/woocommerce/order/order-details-customer.php version 2.4.0 is out of date. The core version is 3.0.0
redacted/woocommerce/order/order-details.php version 2.5.3 is out of date. The core version is 3.0.0
redacted/woocommerce/order/tracking.php
redacted/woocommerce/product-searchform.php version - is out of date. The core version is 2.5.0
redacted/woocommerce/single-product/add-to-cart/external.php
redacted/woocommerce/single-product/add-to-cart/grouped.php version 2.1.7 is out of date. The core version is 3.0.6
redacted/woocommerce/single-product/add-to-cart/simple.php version 2.1.0 is out of date. The core version is 3.0.0
redacted/woocommerce/single-product/add-to-cart/variable.php version 2.5.0 is out of date. The core version is 3.0.0
redacted/woocommerce/single-product/meta.php version 1.6.4 is out of date. The core version is 3.0.0
redacted/woocommerce/single-product/price.php version 1.6.4 is out of date. The core version is 3.0.0
redacted/woocommerce/single-product/product-attributes.php version 2.1.3 is out of date. The core version is 3.0.0
redacted/woocommerce/single-product/related.php version 1.6.4 is out of date. The core version is 3.0.0
redacted/woocommerce/single-product/short-description.php
redacted/woocommerce/single-product/tabs/additional-information.php version 2.0.0 is out of date. The core version is 3.0.0
redacted/woocommerce/single-product/tabs/description.php
redacted/woocommerce/single-product/tabs/tabs.php version 2.0.0 is out of date. The core version is 2.4.0
redacted/woocommerce/single-product/title.php
redacted/woocommerce/single-product/up-sells.php version 1.6.4 is out of date. The core version is 3.0.0
redacted/woocommerce/single-product-reviews.php
redacted/woocommerce/single-product.php
redacted/woocommerce/taxonomy-product_cat.php
redacted/woocommerce/taxonomy-product_tag.php

Outdated Templates: ?Learn how to update

### subscriptions ###

WCS_DEBUG: ? No
Subscriptions Mode: ? Staging

### Intuit QBMS ###

Environment: Production
Tokenization Enabled: ?
Debug Mode: Off