So let me get the base facts correct...
- You have a Gai-Tronics ICP9000 console (which is DC/Tone/E&M capable from the doc's I've found online).
- You are having issues when transmitting page tones (sounds like tones are not being sent)
- Sometimes the console misses calls.
- Logging recorder isn't missing the calls.
- You have noise on the audio when transmitting.
Since DC is somewhat depreciated, I'm guessing your control station radios are interfaced either by E&M (sometimes referred to as local) or by tone remote adapters.
Does the logging recorder record the page tones correctly? If so, is it directly interfaced to the console or is it interfaced to the control stations individually?
When sending a page, has anyone listened to the output of the console at the control radio (or 66 block) and compared it to what audio is actually being modulated by the control station?
Where is the signalling being performed? The console or the control station? Is there a chance that the console also is handling CTCSS/DCS encode/decode?
Finally, the noise you are hearing is a telltale sign of RF back-feeding on the audio TX and RX lines which typically suggests leaky coax, poor routing, or grounding issues.