When you are more than a few feet from the speaker, the sound is dominated by the reverberant field. Close enough to the speaker, it's the direct field that dominates. Too close to the speaker, near-field effects distort the measurement. That's probably why you see that difference - the tweeter is more directional (especially vertically, if it's a ribbon) so when it is flat on-axis, the power it puts into the reverberant field is smaller. Plus, almost everything in the room absorbs high-frequency sound better than mid-frequency sound, so the reverberant field is reduced more at high frequencies.
Now you know why we measure speakers outdoors whenever we can - no reverberant field!
In practical terms, the first-arrival sound dominates the perceived timbre, so your near-field measurement is probably the most useful for high-frequency performance. More specialized test gear will take data from a restricted time window, and can isolate direct sound from reflected (i.e. reverberant) sound, but at the price of reduced frequency resolution. It can get to be a real can of worms!
Incidentally, if you do need more reverberant high frequency energy, turning up a directional tweeter is not the way to go - you get bleeding ears on-axis. Some systems use an auxiliary tweeter, pointed away from the listening area.