The T parameter in the M109 and M104 command selects the tool that the command applies to, hence the letter T. It wouldn't make sense for it to be a heater number, because you can assign any heater(s) to any tool.
For maximum flexibility, configure your slicer to use G10 commands to set the tool temperatures, and let the firmware handle standby temperatures if you are using multiple heaters. However, the way that most common slicers use M104 and M109 is compatible with RRF.