Content disapearing from different sections of site randomly

Been having this problem for some time now. Started off when I added woocommerce to site and created products with large amount of variables. I when updating page , many of the variables would just dissapear. I then increased php max variables and the problem seemed to stop for some time. When I transferred the domain to its live domain , the problem started again, after increasing max variables again through php.ini, the plugin I have to warn when to many variables are being sent still gave warning that i was submitting more than servers max variables limit, but problem seemed to stop. Then It started on other parts of the site seemingly not related to woocomerce. First was updating the menu, which had 9 links in total 8 of which were custom links. On saving menu half the menu would dissapear on some occasions, and also half the content from the front page also dissapeared. I have since upped all the limits in php.ini as follows:

max_input_vars = 10000;
memory_limit = 512M ;
max_execution_time 240 ;
max_input_time 240 ;
post_max_size 200M ;

but problem is still occurring in different ways, latest was that all links I placed on front page dissapeared and other random pieces content in the site either changed or dissapeared (ie product pictures)
site: https://www.goprinting.co.uk

error logs:

goprinting.co.uk [Thu Jun 04 00:46:46 2015] [error] [client 83.216.94.30:49162] AH01225: Error reading request entity data
goprinting.co.uk [Fri Jun 05 00:19:43 2015] [error] [client 83.216.95.196:60899] AH01225: Error reading request entity data
goprinting.co.uk [Fri Jun 05 07:48:09 2015] [error] [client 83.216.94.81:58152] AH01225: Error reading request entity data

Any help would be greatly appreciated