Hi @belimperial ! Thanks for taking the time to respond to my issue!
The additional css you provided seems to do the trick! I will check if everything else is ok in more detail in the following days.
In case you want to see for yourself what is going on in the latest Sydney Theme (because it is a really popular theme), I have creted a demo subdomain that has the issue mentioned, using only the default demo installation of the theme and default setup of popup maker with initial popup. You can checkout the site here: https://demo.halatsis.edu.gr
PS: I have already rated the plugin and the support received!