The new revision of the NTP Server and a test build of the LUFA AVR Programmer boards have arrived. The service from Seeedstudio was pretty quick and excellent for pricing, although one of the boards had some drills not correctly done. Still, it's far cheaper than getting larger runs made so I am quite happy.
Sadly, I appear to have made some mistakes with the stencils that were cut by Ponoko - the detail has been lost a lot more than previous cuts. I suspect I didn't take into account laser kerf enough, but I also think they were cut without protective paper on both sides as previous ones were done. That seems to make a lot of difference. I shall get them re-cut in the next few days.
Now off to order more parts from Element 14 to prepare for the first builds of these new designs!