When using the EQ on the master fader (with linear phase enabled) before my limiter in Pro Tools, any automation I have running on my limiter makes the moves related to the cursor/timeline but makes the change to the delayed audio in relation to the cursor, so all the changes I make before enabling the LP happen at the wrong time in the song! lol...

This is probably due to the fact Neon latency cannot be compensated by ProTools - PT has certain limit above which the latency cannot be compensated - Neon latency is far greater than this unfortunately (or fortunately, because this is what accounts for its good spectral resolution)