I'm leaning in the direction of the problem being the console system install, too.
Levels are vital. Level out of the radio & going into the tone remote adapter going toward the console electronics, and levels going out of the console electronics to the tone remote adapter & radio. It's easy to just throw components together and they 'sound' OK, but if nobody has measured levels, you don't know where you stand.
Several years ago my then-boss & I went out to a location, trying to get some business. 3 position Centracom console, less than 6 repeaters and a couple more channels, mixed between aging Micors, MSF's spread out among several locations. We just spent the day, him at dispatch CEEB resetting levels out of the BIM (Base Interface Module) and me at each station, measuring the incoming levels with a real TIMS, and adjusting the modulations accordingly. Response we got was 'Best it's ever sounded!!' and a bunch of paging tone problems went away (intermittent pageout, not understandable, etc).
There is real test equipment that the techs should be using to do setup & installation, record measurements and (IMHO) provide a written report of results to the customer. Service Monitor, Transmission Test Set (phone line tester), RF power meter, site sensitivity/desense tests, etc. etc.
This ain't rocket science. But it is necessary to use real test equipment to deal with these things. Making yourself an accurate system diagram might help in understanding; consoles, radios in the closet, ancillary equipment attached, etc etc.
If these 2 techs can't provide written test results I think your center is getting screwed. And by not requiring that as part of the process, they've been complicit in screwing themselves. "It's the stingy man who pays the most!" - Tom & Ray Magliozzi, Click & Clack, the Tappett Brothers.
My new aphorism: If chemical plants were built like some two-way radio systems, there would be a helluva lot more explosions.