Hi,
If I may, I'll add a few more lines on Alessandro's comment that might be of use (or not...)
Let's say you want to change the charge state of one of the Li atoms in your cell. Assuming that it is atom number XY with atomic number 3, your input might look something like this:
Title [geometry] END [basis set] ... 3 3 -> Li example basis set 0 0 6 2. 1. 700.0 0.001421 220.0 0.003973 70.0 0.01639 20.0 0.089954 5.0 0.315646 1.5 0.494595 0 0 1 1. 1. 0.5 1.0 0 2 1 0. 1. 0.6 1.0 ... 99 0 CHEMOD 1 XY -> atom number whose charge you change for the initial guess 2.0 2.0 0.0 -> electronic charge of all shells in the basis set, here you alter the initial charge guess (note that the initial configuration is 2.0 1.0 0.0, so you will end up in the "-1" charge state) CHARGED END [SCF parameters] ENDAs usual, supercell size should be converged, localization of the defect confirmed, etc. Good luck with the defect formation energy corrections...one way to go is to use the multipole correction (aka Makov-Payne, see e.g., 2010 J. Phys.: Conf. Ser. 242 012004 or PRB 81, 205214 (2010))...or you can write your own piece of code to interface CRYSTAL's output to for example the scheme of Kumagai and Oba (Phys. Rev. B 89, 195205) !
Hope it helps.
Cheers,
Aleks