시간 없어요 is probably most common. 시간이 없어요 is less confronting, you can say this one when someone asks me for a favor. It's more polite than 시간 없어요. I can't think of any case I could say "시간은 없어요" right now.

Most Korean learners are so confused to tell between 은/는 and 이/가, even advanced learners.^^ I think it's a good idea to explore more at....... http://www.talktomeinkorean.com/lessons/level-1-lesson-9-%ec%9d%80-%eb%8a%94-%ec%9d%b4-%ea%b0%80-topicsubject-marking-particles/ (Also you can download the pdf file there.^^) The particles 은/는/이/가 is often left off when they are quite clear in context. \^o^/

시간 없어요/있어요 are same as 시간이 없어요/있어요. I (don't)have time. 시간은 없어요/있어요 means "I (don't) have time, but I will(won't) do....."