So you are saying it plugs into the ODBII port under the dash, correct? If so, yes, you could hard wire it behind that connector. The only thing that could occur to my knowledge is that you might run into a termination mismatch. I've read that the CAN C Diagnostic is terminated in the TIPM, so I doubt you would have any trouble. Just get + on + and - on - and you "should" be fine.
*this statement come with no guarantee or warranty, just from my knowledge of it, it should work.
PS. When you say two wires...is it getting power from somewhere else? Make sure those two wires are not power and ground! Your OBDII port should only have a power, a couple grounds, Can+ and Can-. I would guess you only have 5 pins in the connector housing populated.