this may be a bug...
I have in the past tried to do an 8 channel output to a Sony IMX vtr, and couldn't get it to work with ETT.
If I chose 8 channel audio mapping in the Device Control preset, with RS222 control, then in my ETT window the destination track control popup for the audio tracks showed channel 4 as pre-enabled and greyed out so that it couldn't be modified.
(If anyone else would care to experiment, just create a device control preset with Audio mapping set to 8 channels and see if your ETT window will allow you to enable/disable channel 4.)
Furthermore, regardless of ouput channel selection, FCP's device control was unable to control channels 5 to 8 on the recorder.
In FCP, if I selected any output channels above channel 4, then all channel selections below 4 were ignored, and the recorder only recognised a signal to enable channels 1 to 4 relative to my selections in the ETT window on channels 5-8.
Bizarre.
The actual output from the Decklink card was exactly as it should be with the output assignments correctly mapped to the output channels. The only immediate workaround I could find was to put the record deck next to the FCP and manualy override/enable the tracks to insert directly on the deck ... it worked but was far from ideal.
Alternatively, it worked using PTV and crash recording on the deck.
I'm guessing your problem with 12 channel output / deck channel control is closely related to the problem/bug which I describe above.
I'd assume the same workaroubd will work for you ... manually enable/disable the tracks you need, or use Print to Video
Hope it helps
Andy