Bose L1 Pro 32 and T4S Guitar issues

Just got my Bose L1 and T4S.
Plugging acoustic into the tower- sounds magic.
Plug the guitar into the T4S there is barely a signal, which means the gain is right up- and just cracks and pops with some barely audible guitar.
Microphone works on all channels.
Guitar won’t on 1-4 but will on 5/6, Keyboard works on channel 5/6 only- no others.
I’ve bypassed all the effects.
Done the firmware update.
The background noise is also quite prominent when any channel is open- other than 5/6.
Any ideas about what’s causing the probs?