We obtain large $n$ asymptotics for the $m$-point moment generating function of the disk counting statistics of the Mittag-Leffler ensemble. We focus on the critical regime where all disk boundaries are merging at speed $n^{-\smash{\frac{1}{2}}}$, either in the bulk or at the edge. As corollaries, we obtain two central limit theorems and precise large $n$ asymptotics of all joint cumulants (such as the covariance) of the disk counting function. Our results can also be seen as large $n$ asymptotics for $n\times n$ determinants with merging planar discontinuities.