No. you need 3 returns. Joint and 1 for each spouse.
With online you may have to pay to see the results and only one return can exist. so you would have to do MFS for one spouse, and probably pay to see results - save as a pdf. then do the other spouse which which will overwrite the first spouse done. fees(/) and save as a PDF. Then finally do the joint which will overwrite the the file for the second spouse.
other possibilities 3 accounts,one for each but you'll have to pay 3 times.
use a desktop version if your computer meets the minimum system requirements. one fee to purchase (1 state can be free with purchase additional states there is a fee). e-filing the federal is free. There's a fee to e-file state
