Doepfer

Does anyone know how to adjust the slight difference of intonation between e.g. Doepfer A-110 oscillator compared to a moogerfooger oscillator (e.g. in the freqbox)?  If I tune it at the lowest pitch it gets gradually out of tune going up a couple of octaves.

I have the same problem with my old micromoog vs the A-110. (but worse) 
Also - the S-trigg signal is inverted on the moog and at a higher voltage (12v I believe),

I want to control my Doepfer A-100 system via micromoog and and an oscillator via the freqbox... 

Any ideas would be greatly appreciated.