We had a little bit of a problem like that with a home we purchased back in 2003, where the temperature was a killer and maintenance of the roof's elasto seal covering too much of a hassle. We tried a friend's recommendation for the same problem which he also faced long ago. We used "gravilla" or fine gravel to place a thin coat all atop the flat roof and wet the roof once in a while during the worst summer heat waves. It worked! We also found by trial and error, that using some weed killer added to the water also worked wonders to control unwanted greens growing there. A word of recommendation after using three types of gravillas: Buy the one that's white in color, the lighter the better!
dipre; You could use rigid foam insulation panels 6" by 4x8 and your roofing could go over it, it will give you good insulation for the money.
Ditch the flat roof, it will be a problem. I've never seen a flat roof here that didn't eventually leak; and they invite heat, contraction and expansion. No need to rip it off, just cover it with a sloped style. Corrugated metal, cana, whatever. Open to suggestions.