Lets look an real example of TB shall we...
(
http://www.apple.com/displays/specs.html)
One TB connection into my laptop/desktop and I get:
1) Three USB 2.0 ports (which can of course can support USB hubs)
2) FireWire 800 port (which can daisy chain multiple devices)
3) Gig Ethernet Port
4) TB port (which, for example, could connect to another cinema display...)
5) 2.1 speaker system
6) HD camera with microphone
...oh and two dedicated 2 DisplayPort channels.
Yeah clearly USB 3.0 is the greater interconnect here
The item 1-6 above are only a simple bridge chip away from PCIe and require no special drivers, etc. on the host to support (host sees PCIe devices). PCIe-USB standard part, PCIe-FW standard part, PCIe-Ethernet standard part, etc. all hung off a TB chip/port.
Will USB 3.0 replace USB 2.0 on Apple products... sure no reason not to do that once the chips for them are integrated into chipsets and/or lower to a good price point for integrating into displays, etc.
TB will happily support the addition of USB 3.0 as well.