Has the radio ever worked standalone - as in before the Em-Trak was connected (was this a new AIS installation)?
Can we assume you are sharing a single VHF antenna between the EM-Trak and the VHF 200 radio?
If so, and since I think the VHF 200 does not include an internal splitter, can we assume you are using a splitter that is built into the EM-Trak (I'm not sure all models of Em-Trak support antenna signal splitting) as opposed to a standalone splitter?
Whichever splitter you are using, have you tried bypassing the Em-Trak (and standalone splitter if there is one) by plugging the VHF antenna back into the radio directly? This is a diagnostic step only - if you disconnect the antenna from the Em-Trak you won't have AIS obviously. The point of the above is to try to isolate in which component your issue resides.
If you find out the issue is with the Em-Trak and its internal splitter, you may have to go searching to see if there is some software configuration you need to set on the AIS unit. Or.....
For what it is worth, on our boat we installed a separate AIS VHF antenna specifically because we didn't want to depend on a signal splitter. The day we needed the VHF radio we didn't want some extra electronic component sitting between the radio and the antenna. Also, you can get an antenna more appropriate to AIS signals that may actually give you better AIS transmit performance than the antenna designed for the VHF radio.
Won't help you now, but might be worth considering in the future.