Um...I don't think that Emily had The Thug killed, I think the Graysons did.  And she does still have the witness tampering she can throw at them later on if the need arises, but so far, Emily hasn't really killed anyone, she has only made them wish they were dead.  As we have now learned, the Graysons have killed people to keep their secrets.  I get the feeling that Emily's plan to ruin the Graysons will not happen through Daniel's trial, but in unraveling their secrets from when they framed her dad.