I have tried adjusting the the auto reverser all the way and it still trips the Dynamis. Yes it is isolated from the rest of the layout. The toggle switch I was talking about is one I had on the layout before I had gotten the reverser. Flipped one way for entrance into the section and flip it for the exit out to keep the polarity correct.

On my layout I have Dynamis DCC which works fine but I have a reverse loop that I put a Bachmann auto reverser and it just will not work. The reverse loop works fine if I use a toggle switch but with the reverser it always pops the Dynamis first. The only exception is on one rail on one end of the loop if I cross it with a wire it works fine. Any Ideas?