Sorry to hear about your plight
A couple of points worth mentioning here tho...
This ilvl barrier does appear to be something which has been created in MoP and the logic of it pretty simple. Players now think gear is the only measurement of skill. And thats got alot to do with the current raiding community r mainly 'new-blood' and not many of them are 'old school'. The gearscore phenomena started in Wrath and has become more and more of an obsession basically.
The application thing has always been the same but it sounds like the character of the guilds ur applying to is not so good. Im guessing that raiding guilds these days r inhabited by much younger players than back when u were playing Wow seriously. I say that because older players wouldnt be so spiteful and rude over apps...
I suggest that u ask around your realms community and find out which guild has a more mature attitude, or just find the longer established guilds. because theyre the ones ur less likely to find such bad attitude from the GMs and officers.
In relation to skill, there are plenty of discussions on this very forum on just how much skill is needed to play Wow these days. Personally, id take an experienced skillful player over a high gearscore any day of thw week, but sadly that isnt how the vast majority see the game these days...