If I understand you correctly, you have an open drain from the top of the floating roof, through the floating roof, out the bottom of the floating roof and into the fluid.
The tank liquid, with no draining, should be somewhere in the drain line (800 mm to 900 mm plus 75 mm 'standpipe' or 'drain line') representing how far the floating roof is 'sitting' in the liquid. You can either measure that or calculate that as you'll need it. It may not be significant but I'd want to check it. If the roof doesn't 'sink' far in the liquid (think of a canoe) the effect is minor. If the roof does sink down in the liquid significantly (relative to its thickness, like a loaded ship), I'd want to consider the effect.
Doing the drain calculations, I'd determine the height of the liquid in the standpipe above its outlet. This height is essentially the pressure at the outlet of the drain leg (where the water draining down the standpipe flows into the tank). Now, when you are draining at maximum rate, the drain leg will be full of water going from atmospheric pressure at top, through the drain leg to the tank at the calculated outlet pressure (from above). The driving force is the pressure created by the drain leg full of water. Other than correcting for the 'pressure' where the drain leg ends, I don't see any problems caused by the product in the tank.
What you will get is the maximum drain capacity. If you have less than this, than the water will only fill part of the cross section area (ie. run down the walls) or it won't completely fill the standpipe (which means less driving force and therefore less flow).
The only thing I might caution is that if you are overflowing water from the roof into the drain leg, how much water must accummulate on the roof in order to fully flood the drain leg and thus get your maximum capacity? I'm not sure of the answer to this. You might have to do some checking with the numbers to see how much water the roof can carry and how does this compare to the diameter of the roof drains. If the drains don't completely fill, then you have a much more difficult calculation and one I'm not familar with.
Have you talked to the roof vendor and ask them what approach they use or standards they reference.
This isn't very easy to explain. I can send you a sketch if you want to give me a fax number.