Don't know but it might be possible to piggyback the window function onto the second unlock press (which unlocks the passenger side) to trigger the windows, too. Maybe... Of course, that might be a bit inconvenient if you wanted to unlock both doors in the rain.....
To get completely independent autodown control of the windows from the fob, you could try using one of the 4-button fobs that have trunk unlocking capability for passenger cars. That would give you the extra command that you need. With autodown capabilty, the window part of it seems feasible as well.
A problem could arise at the Central Security Module which receives and executes the commands from the fob. Does the CSM have the ability to understand the 4th button? Possibly but that in itself may not be enough. Here's my short story about why not:
I installed a Ford keypad entry in my truck and wired it to the CSM. My reasoning was that, since the CSM is common between 2003 Rangers and 2003 Sport Tracs, AND since Sport Tracs are available with keypad entry, my CSM should be able to respond to the keypad as well. The factory Ranger CSM even has a 5-digit entry code printed on its label!
I figured this would be easy. WRONG!
After a lot of puzzlement and frustration, I finally found out that each assembly line flashes a hexidecimal code into the CSM at end-of-line to enable the CSM features for that model. On the Sport Trac, the keypad option is enabled; on Rangers, it is not. It took some experimentation but I was able to substitute the appropriate code number (pilfered from a neighbor's 2001 Sport Trac) into my 2003 Ranger CSM. This required the use of a dealer-only tool that interfaces with the module network through the Data Link Connector under the dash. I was lucky enough to be able to borrow one of the tools for a few hours from a well-connected friend. Now my keypad unlocks the doors through the original but recoded Ranger CSM.
The point is this - even if you add the necessary wiring and even if the CSM has the hardware to do many optional tasks, there is no guarantee that the CSM can perform those tasks without the correct configuration code.
Bottom line - IMO, using an aftermarket alarm capable of lowering the windows sounds like a much more practical way to get this feature.