  We analyze electroweak baryogenesis in supersymmetric theories with
flavor-dependent CP-violating phases. We generalize the standard approach to
include the flavor dependence of the CP-violating sources and obtain an
analytical approximate expression for the baryon asymmetry of the universe
induced by these sources. It is shown that in the framework where the
$\mu$-term is real and the chargino sources vanish, large flavor mixing might
lead to a substantial baryon asymmetry through the squark contributions, once
the condition to have a strong first-order phase transition induced by light
right-handed up squarks is relaxed. We derive model independent bounds on the
relevant up-squark left-right mass insertions. We show that in supersymmetric
models with non-minimal flavor structure these bounds can be reached and the
required baryon asymmetry can be generated, while satisfying the constraints
coming from the electric dipole moments.
