If I add a reverb MFX or really any effect that carries on after it loops (like reverb or delay or something), it will sound all good and dandy until I have to resample. When I resample, to get the same loop I need to cut the sound short where it loops which cuts off the release of the effect. From my understanding, I'm required to resample if I'm gonna use another effect elsewhere. How can I maintain the "after sounds" from a sample when handling tons of layered effects and samples?

I guess you'll want to let the loop run two times while you resample. That way you'll get the released effect carried over to the second half and can use that half as your new loop. You'll get a clean loop but of course now you have a cut at the beginning, so al you could do about that is keeping a recording of the first part for later.