OK based on some of those reports from other pilots you can rule out active jamming, since the MFD's are the only items affected and the actual GPS receivers are still functioning. If there was active jamming of the GPS signals you would loose everything.
Now based on the areas up around Baltimore there are many things that could cause this type of problem. That area has the most flight traffic in the US. You have several ATC operations going on up there, military installations, NSA, and who knows what else. So there is ALOT of EMI floating around, (Electro Magnetic Interferance). Radio traffic, satalite uplinks, cell towers, radar systems. You name it. There is alot of that stuff up in that area and it will cause problems if you systems aren't designed to handle it.
With the MFD's being the only thing affected the first thing I would check is the type of cable being used to connect the GPS receivers to the MFD's. I'd be willing to bet it's a single braided shield on that cable and it's not properly bonded to either of the units it connects too. A standard commercial RS232 cable works fine for most applications but in high EMI situations it will pick up alot of interferance and cause problems.
I would recomend at least a double shielded, double braided outer shield, foil inner shield cable for high EMI situations. The more shields the better. It cost more but it's also more reliable. MILspec cable is the best and use solder type pins on the connectors vs crimp on pins. You also want to use non ferrous metal connector shells instead of plastic. Pull the outer shield out through the back of the connector shell so you have enough to go from the connector port to the ground lug on the back of the unit. Use a crimp on ring terminal end on the end of the shield, and solder it as well, then secure that to the ground lug on each unit.
We had to replace all the inter connect cables on the Cutter James Rankin in Baltimore for the same kind of problem. Their nav systems would constantly loose fix if they were anywhere near Baltimore. The GPS receivers worked fine but everything else would go to crap on them. We went up there and conducted an EMI study and found all sorts of stuff. They wouldn't even use one of their radios because every time they keyed it up the nav system would drop the nav fix.
Once we replaced all the commercial cables with heavy shielded cables we built on site the problems went away.