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Can units use the commanders leadership if he is in a chimera?
I don't see why not.
IG Best Gen 1st overall of 10 DE 4th overall of 6
Eldar 3rd Overall/Best General of 26--2nd Overall/Best General of 7--1st Overall/Best General of 11
If they are within the leadership range or are using the mastervox/vox squads setup then yes, the Commander being in a chimera should make no difference at all.