Unfortunately no, not as far as I know anyway (I'd like it if someone could prove me wrong). Flashing must be done via the JTAG pins on the jalapeno pcb. There are a few good guides out there and the parts needed to do it will run you less than $100.
see :
https://bitcointalk.org/index.php?topic=244235.0If you happen to have a Raspberry Pi lying around it could be used in place of the Dragon in the above link
see :
https://forums.butterflylabs.com/jalapeno-single-sc-support/4484-reflashing-jalapeno-using-raspberry-pi.htmlI have not tried this myself yet but come this weekend me, my Pi and my Jalapenos are going to have some fun
Disclaimer: Like the guides say, if you try this and something goes wrong you run the risk of breaking your jalapeno, so don't attempt this unless you're willing to run the risk of making a really expensive paperweight.
Cheers
