I think "hate" is too strong a word here. However, if Byakuya does have some negative feelings towards her - it is for the same reason Soifon had negative feelings towards Yoruichi when she suddenly reappeared. Yoruchi was seen as a traitor for helping Urahara, Tessei and the Vizards escape Soul Society justice. They believed she had helped people who hard harmed Soul Society and might harm it further. Byakuya is all about duty and honour, as is Soifon, and so like Soifon - while he believed Yoruichi had disgraced herself by bringing dishonour upon her house and herself - he would undoubtedly not be friendly towards her.