Is the fastest timer interrupt I can achieve one millisecond? I'm running default clocks. System clock is 403.2 MHz.
The maximum frequency you can feed the complex GPIO is SYS_CLK/2 so it is around 200MHz and say you keep a threshold value of 1 while configuring the complex GPIO it should half the value. so theoretically it would be 100MHz but at that speed if you trigger the interrupt I doubt you'll be able to execute anything.
What is the frequency you're looking at for your application?