let's see some picture's of how you routed you breather hose's to the ground with an s&s air cleaner or any other one for that matter on a new twinkie.
No pics but I come off the breathers with 2-pcs of 3/8" hose and a "Y-Fitting" (as opposed to a T-fitting). Link to a longer piece of 3/8" hose, run it between the cylinders and to the ground between the primary and engine block. You don't even see it unless you're looking for it. The Y-fitting scavanges the fumes from each cylinder.
Sorry the picture isn't very close up but this is the system mentioned by DK Custom's. I use a T fitting and run a single hose a long the frame rail, so far it's working fine. Forgot to mention that's a DK Custom 587 high flow AC.