Your arrays should be N x N, not N/2 x N/2.
Your use of the bitwise operator & is unusual but works. I mistakenly thought you need a logical and ( && ) instead. Still, for readability I'd suggest the &&. You get the short circuiting with too.
for (int i = 0; i < N; i++) {
for (int j = 0; j < N; j++) {
printf("\n%d,%d\n", i, j);
if (i < N / 2 & j < N / 2) {
ha11[i][j] = hA[i][j];
} else if (i < N / 2 & j >= N / 2) {
ha12[i][j] = hA[i][j];
} else if (i >= N / 2 & j < N / 2) {
ha21[i][j] = hA[i][j];
} else if (i >= N / 2 & j >= N / 2) {
ha22[i][j] = hA[i][j]; //faulty!
}
}
}