This is the matrix for the right hand (copied from ergodox-firmware/src/keyboard/ergodox/matrix.h)
k57,k58,k59,k5A,k5B,k5C,k5D, \
k47,k48,k49,k4A,k4B,k4C,k4D, \
k38,k39,k3A,k3B,k3C,k3D, \
k27,k28,k29,k2A,k2B,k2C,k2D, \
k19,k1A,k1B,k1C,k1D, \
k07,k08, \
k09,k17,k18, \
k0C,k0B,k0A
The first digit in each symbol above is row, the second is column.
The matrix on each half has two unused positions, but most ErgoDox keyboards also have 1×2-sized thumb keys and the keyboard design allows each of these to be divided into two 1×1keys.
So, if you use 1×2-sized thumb keys then there are 2 unused keys to be used: These are k17 and k18. Both are on row 1, so you would need three wires to hook them up.
There are also two unused positions in the matrix: k37 and k0D. k37 is in the same column as k17 which would be already connected so you would need only one additional wire to connect that one too.