Problem you'll run into there is that the cells will sag a bit (how much depends on what cells you get and how much current you pull), so they will drop below 3.6V during normal operation, even though they have not yet hit 90%DOD (Depth Of Discharge). You'll want your hard-cutoff at 3.0V, as that should be a last-ditch 'if I keep going on this, I will kill the batteries' cutoff. The soft cutoff I would put at probably 3.5V, as in my testing, my '20C' cells sagged ~0.1V at 40A (8C) draw. That cutoff will ramp back the current it's pulling, to decrease load on the cells, which will in turn raise the cell voltage.
Monitoring the full pack voltage should be fine for normal operation, but I would highly recommend getting a celllog (or something similar) for quickly and easily checking the individual cell voltages afterwards. You want to keep a particularly close eye on them for the first few cycles, and you want to check all pack before hooking them up to anything. Because of HobbyKing's less-than-stellar QC process (hey, they're dirt-cheap and mainly targeted at RC stuff, what do you expect?), expect about 10% of the packs to arrive with at least one cell either DOA (0V), or close to it. Also, if any of the pack you get are puffed at all, don't touch them, immediately file a claim with HobbyKing and carefully properly drain and recycle the cells (do the same for DOA or <2V cells, to be safe).
As a corollary to that, make sure you order ~10% more packs than you actually need.
CellLogs:
http://epbuddy.com/index.php?main_pa...products_id=27
http://epbuddy.com/index.php?main_pa...products_id=14