browning-a few months ago when anyone spoke of canopy work, I would shutter, sweat and wet myself in fear.

Then after browsing plenty of builder logs, I figured it was just another RV job which everybody does, so just do it.
Support the canopy. I used the top of my finish kit box as a work platform. I screwed blocks the width of the fuselage to keep the canopy from spreading (along with a couple of tape stringers).
My shop is usually around 70 on the days I did my cutting. No need to heat the whole shop, as the halogen lights put out a lot of localized heat.
I use a digital thermometer, placed on top first. within 30 minutes the canopy is >85*F. Next lower the lights and place the thermometer underneath. by directing the heat under the end the canopy stayed toasty warm. Don't warm it too fast or too hot. By the time I was done cutting the area underneath was 95-105.
I used the Vans supplied discs in my Mac airdrill. Easy to control the speed. Too slow and the disc wanted to creep off line or grab. High speed seemed to melt a groove in the plexi. I liked a medium speed and made many passes to deepen the groove. This way the canopy is connected until the last little lip is severed. almost no tension and no surprizes.
mike- thanks already got a new countersink...but forgot to order a plexi drillbit