I agree with Doodles. What you are seeing now is classic behavior in unbonded rabbits. One moment they are happy together, the next moment they are mortal enemies. Also, the first few weeks after a spay is the "worst" time regarding aggression and territoriality. This is because a spay creates a hormonal imbalance in the body and brain, and the bunny system needs time to adapt. This is normal, but it means bonding should not be attempted at all during this time.
It's good that they are in the same room, but they shouldn't be allowed to meet. Cage bars are not enough to keep them out of harms way, there should be a solid barrier or a distance between the cages/enclosures so they can't reach in to bite each other. Buns can bite each other badly if they get the chance (eyes, nose, cheeks etc).
Since they have been fifghting, it's safest if you do a full bonding procedure once they've healed, starting with pre-bonding (swopping toys and litter boxes between them).
Here's a link to this site's bonding info: http://www.binkybunny.com/BUNNYINFO...fault.aspx
You can also start a bonding journal for them here to get tips from other people, there will be many situations a long the way that you may want advise or just general input about.