Yes, these cells can be discharged down to 2.5V, if the cells rest for longer periods at this voltage, you'll damage them. Discharging to 2.5V may happen if you have large discharge currents (> 1C ... 2C), but the cells recover pretty fast to voltages abobe 3V when discharging stops.
For normal use, the cells shouldn't be discharged that deep at lower (< 1C) currents. Most of the batteries capacitance gets discharged at voltages above 3.0 ... 3.3V, so if you go lower, there will be very little additional capacity. A Li-Ion cell at 3.3V and no discharge current, after some resting time, is considered empty, though you'll see lower voltage while discharging the cell, depending on the current.
You may want to look up some datasheets of these cells to get an idea of the discharge voltage over discharged capacity. At the end of discharging, the voltage falls quite rapidly. From my experience, when discharging these cells at rather low currents (less than 0.5C ... 1C), 3.3V is a good point to stop discharging.