My phone interview was similar. No Unix questions as I recall, but I had the latch/flip-flop - and they followed it up with a question about transparency. It was 10 years ago though.
I got the setup one too - the hard one. Made me smile to see you got it too. I actually ask it to people now. In hindsight, I struggled, my interviewer gave hints and I finally got it right. The answer that she was looking for was to change the clock tree - which was something that I hadn't thought of right away.
After the first phone call, I got phone interviewed a second time by someone on the team that was looking at hiring me. The second was far more difficult (I remember he had me draw a circuit with at least 8 FETs in it over the phone.

) and lasted quite a bit longer. At the end up of that, he said that I should come down for an interview and gave me some numbers of the Intel travel office to call to set it up.
Then I went down, spent the night in the Biltmore across the street and then we had a really long day of interviews. Four interviews lasting 45 minutes each, with a 15 minute break, for 4 rounds: circuit design, logic design, architectural/programming, and then test & manufacturing. I did great in 2 of them, bombed one of them (architectural) and then did ok in logic design. In the afternoon, we had a tour of the campus. Then in the evening, we had dinner with the teams that were looking at hiring us. They said it wasn't an interview... but it was.
I received an offer about 4 days later.
I've been working for Intel for 10 years now - started designing Pentiums (P54CS... the 133/166/200MHz Pentium), and then have been working on Itanium design ever since. I really like Intel and honestly wouldn't consider working anywhere else unless the salary difference was ridiculous.
Good luck, and if you want to emai/IM/phone talk about anything, SpecialK, just email and I can give you my IM, and/or phone number. My site isn't hiring, but I'm sure that could answer any questions that you might have.