I'm a network guy and I can't believe I'm saying this, but I wouldn't run fiber if you're running conduit. I *might* hedge my bets and run fiber if you aren't running conduit, but so far what runs on conduit today has been able to run on copper tomorrow. Sooner or later that will run out but I'm suspicious that will not be an issue for the home.
I ran 4 cat 5e drops and 2 coax drops to one side of each room, and 2 cat 5e drops and 2 coax drops to the other side of each room for maximum flexibility in each room. So far that's paid off in a couple of bedrooms where we've changed the orientation around and were able to change where television and computer locations were.
I ran 2 coax instead of 1 so that I could have video in and video out. We use that to distribute video from our Dish network locations throughout the house. In my study, and in my living room, I have receivers. We can watch what's playing at either of those locations everywhere else in the house via an A/B coax switch in the bedrooms and other watching locations. I run the output from the receivers down to the wiring closet, then redistribute them back out to the primary and secondary coax outlets in each other room.
You can also do that over copper these days, but I built this house 11 years ago when that wasn't so certain/easy.
I would run Cat6 these days, it was magnitudes more expensive back when I built mine with cat5e instead. I have a gigabit network running throughout the house with a central HTPC server with content that can be accessed in every room with cabling. We watch movies in the basement that run over the network from the server 2 stories up, no lag. It's awesome. We have wireless but never use it.
I didn't run cable to my dining room, kitchen (other than 1 for phone), or bathrooms. I regret that. Wish I had. A computer/tv in the kitchen. Computer in the dining room, which doubles as a gathering location sometimes. Resale value of having data/voice in the bathrooms someday.
Highly recommend a drop ceiling in the basement if you have one instead of a drywall ceiling. Makes future upgrades much much much easier, and you can get fairly attractive ceiling tiles.
Used mine 10 years after I built the house to extend my Wii and other video game cabling. My receiver and other gear is to the left of the room. The projector screen we added is in the front. I put audio/video hookups, including USB in the front underneath the screen, that extend through the wall/ceiling to the receiver. Kids/guests can hook up video game systems straight to the projector screen area, and not have to run them straight to the receiver which would have cables across the walkway. Also I put a Wii receiver bar above the projector screen, and ran cabling from it across the ceiling (used 2 extension cables) to the receiver area where the Wii is. Works much more reliably than the wireless model. Upgraded the speaker system through the ceiling very easily in the basement, and also in the living room above since I had easy access.
Etc. Very happy with my choices. Flexibility is good, you don't know now what you'll want in several years.
--- saint