PAllen said:
But given its speed, a second is a long time. However, I get about 10^-7 seconds from pitcher to home plate, which is still order 10^23 atoms encountered. This is still enough, I think, to suggest it is mostly disintegrated by home plate, and that most of the 'magically appearing' KE has been released. With or without fusion, the mushroom cloud image looks not far off.
Yes. I came up with around 100 nanoseconds also.

Another thing to consider is the cross sections of the atomic nuclei interacting.
The electron shells I would imagine would be stripped away almost immediately, leaving a plasma baseball.
According to wiki, the radius of the average atomic nucleus can be estimated by:
R=r
oA
1/3
where r
o = 1.25 femtometers = 1.25e-15 meters
and A is the atomic mass number
Which for nitrogen, yields a radius of 3 femtometres, and a cross sectional area of ~3e-29 meters
Multiplying by 10^25 particles, per PeterDonis, yields a solid cross sectional area of 3e-4 meters for the baseball. Which is somewhat less than the actual cross section of the ball, which is 4.3e-3 meters. Roughly 1/10 the actual size.
Multiplying that by the distance to the plate, 18 meters, yields a volume of 0.005 cubic meters, then multiplying by 3e25 nitrogen atoms per cubic meter yields 1.5e23 atoms on the way.
Which is 65 times fewer atoms than in the baseball. So I think there will be something left once it hit the bat.
Poof!
ps. please don't shoot me if I got anything wrong. I'm only practicing my nano's and fempto's. But if I got those wrong, well, yes, then you can shoot me.