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I am curious, what DAW are you running?

I had the same issue with Reaper. Drove me nuts and made me scrap the software as it was unreliable.

I just finished recording a festival with 19 bands with 46 tracks using Logic and it was solid.

T112, iDR48, M-DANTE, PL10, MixPad, Editor
MacBook Pro, Mac Mini
Lion/Logic Pro
All latest versions/firmware