I'm assuming that you've chosen a mode that the monitor actually supports (not exceeding the max. HSync frequency of the MicroVitec monitor).
I remember that when the first German "Amiga" incarnation was active (1995/1996), they also used MicroVitec monitors and re-badged them with Amiga. It's probably why you're trying to connect it to the Amiga, right?
That was the time when I developed my first commercial product, the Graffiti card. I had serious trouble making it work with one of the prototypes and had a solution adding a driver to the HSync output. So I know that these monitors are special, maybe even violating the standard.
I suspect that the monitor puts a heavy load on the HSync signal and does not acept the 3.3V signal that Indivision AGA MK3 outputs. If you're a little into electronics, you could try to buffer the HSync signal and see if it makes a difference. I won't be able to do anything about it, and to be honest, don't really see the need, as we didn't have any report of a non-working monitor in all these years, indicating that the monitor violates the standard with it's load and/or switching threshold.
Jens