That's electronics for you.
I had similar problems in the DAT days. I used the RCA jacks from the turntable straight into the Line Stage OadeMod SBM-1, then the 7-pin into the DAT and the levels & sound were perfect, but I found that I could not run the SBM1 with the wal-wart or I would get a hum. I solved the problem with batteries, and that thing (SBM-1) would EAT batteries, but since I only needed 20 minutes or so a shot, I would use all the "half-used" ones from shows.
It just turned out to be the number of electronics in the chain.
Or ghosts.
Probably ghosts.