So you're saying something like:

IF PWM output is high, start the horizontal clocks

Yeah, using another I/O pin is not a problem, cuz at this point i think i am using 2 pins of portA

How would I go about getting the HPWM to oscillate at 3.6kHz with a 25% duty cycle? I will look at the manual again later today or tomorrow probably and see if i can figure it out.

thanks again, you are a huge help.