Ummm..got me dude...

:d:

Opus :p:

Here's exactly what the manual says:

"Remember that the Aux Ins are stereo inputs. They carry the left and right
signals from a stereo device (such as your MIDI sound modules). Therefore, Aux
In 1 feeds Line Ins 1 & 2 of the Omni (left and right respectively), which in turn
feed the Delta H/W Ins 1 & 2. Aux In 2 feeds Line Ins 3 & 4 of the Omni (left and
right respectively), which in turn feed the Delta H/W Ins 3 & 4.
Also, since the Omni mixer channels for the Aux Ins gives a boost in level, you
will experience a drop in listening level when you engage the “To Ins 1, 2”
switch. What is important at this point is to establish an optimal level for
recording the MIDI tracks, and then to set the playback levels once the track is
recorded.
NOTE: “Aux to Line In” switches are only provided for Aux Ins 1 & 2.
Aux Ins 3 & 4 can not be routed to the Omni Line Ins in this fashion."

Am I screwed???

Yup. (in a nutshell)

Aux in 1 is a stereo input, when you push the button in, it gets routed to (DAW) inputs 1 and 2, which kills the preamps on the front of the Omni.

Aux 2, same concept, except it goes to (DAW) inputs 3 and 4.

Aux 3 and Aux 4 go straight to the Monitors without going into the computer, and cannot be routed into the computer. They (soundcard manuf.'s that is) made this limitation into a feature, they call it zero latency monitoring!

You would need to repatch Aux 3 and Aux 4 to be able to record them.