^^^^ +1 to the quick bleed, but before you do that, just do the lever flicks as seen at the ~3 minute mark.
The internal reservoir isn't completely air-free, which is why Shimano doesn't want you flipping your bike upside-down. My guess is that sometime in the transport between CO and FL, air worked in to the lines from the reservoirs and those little bubbles just haven't worked their way back up to the reservoirs. You can also put the bike in a stand, orientate it such that the hoses are vertical and tap-tap-tap on the hoses, bottom to top, jiggling those bubbles upwards and out of the line.
In general, 2,000 miles is a very, very short interval and you shouldn't need a real bleed for quite a while.