Touch ID not working but home button working.

I'd be interested to see how you remove flex connectors. I've seen before people going about it in one of several ways that is known to damage connectors or flexes and not have trouble for a long long time then have devices or components mysteriously die as a result.

I'd double check your connections to be sure they are solid and not half connected. Make sure they click in the whole way. You can replace the flex that runs behind the steel plate without messing up the touch id. I'd try that then if it still isn't working and you've exhausted your other resources I'd do what nobody likes doing. Take it to apple. Put the damaged display back on it, clean it up such that it looks like nobody has been in it before and go pay Apple for a screen replacement. They can re-pair a home button and do when they do screen replacements.