There is either an issue with the chicken (the server) or the eggs (the WU's).
I posted this in the "Issues with a specific Server" forum at first and received no response.
A response to another folder with a similar issue instructed that folder to post here. So here goes.
Here is the first of two WU:
-- August 6, 2008 ---
[03:06:12] - Preparing to get new work unit...
[03:06:12] + Attempting to get work packet
[03:06:12] - Will indicate memory of 1014 MB
[03:06:12] - Connecting to assignment server
[03:06:12] Connecting to http://assign.stanford.edu:8080/
[03:06:13] Posted data.
[03:06:13] Initial: 40AB; - Successful: assigned to (171.64.122.78).
[03:06:13] + News From Folding@Home: Welcome to Folding@Home
[03:06:13] Loaded queue successfully.
[03:06:13] Connecting to http://171.64.122.78:8080/
[03:06:14] Posted data.
[03:06:14] Initial: 0000; - Receiving payload (expected size: 239313)
[03:06:15] - Downloaded at ~233 kB/s
[03:06:15] - Averaged speed for that direction ~139 kB/s
[03:06:15] + Received work.
[03:06:15] Trying to send all finished work units
[03:06:15] + No unsent completed units remaining.
[03:06:15] + Closed connections
[03:06:15]
[03:06:15] + Processing work unit
[03:06:15] Core required: FahCore_78.exe
[03:06:15] Core found.
[03:06:15] Working on Unit 03 [August 6 03:06:15]
[03:06:15] + Working ...
[03:06:15] - Calling 'FahCore_78.exe -dir work/ -suffix 03 -checkpoint 15 -verbose -lifeline 2372 -version 504'
[03:06:16]
[03:06:16] *------------------------------*
[03:06:16] Folding@Home Gromacs Core
[03:06:16] Version 1.90 (March 8, 2006)
[03:06:16]
[03:06:16] Preparing to commence simulation
[03:06:16] - Looking at optimizations...
[03:06:16] - Created dyn
[03:06:16] - Files status OK
[03:06:16] - Expanded 238801 -> 1168241 (decompressed 489.2 percent)
[03:06:16] - Starting from initial work packet
[03:06:16]
[03:06:16] Project: 4432 (Run 339, Clone 1, Gen 12)
[03:06:16]
[03:06:16] Assembly optimizations on if available.
[03:06:16] Entering M.D.
[03:06:22] Protein: p4432_Seq41_Amber03
[03:06:22]
[03:06:22] Writing local files
[03:08:11] Extra SSE boost OK.
[03:08:11] Writing local files
[03:08:11] Completed 0 out of 2500000 steps (0)
[03:23:11] Timered checkpoint triggered.
[03:33:54] Writing local files
[03:33:54] Completed 25000 out of 2500000 steps (1)
[03:48:54] Timered checkpoint triggered.
[03:59:36] Writing local files
[03:59:36] Completed 50000 out of 2500000 steps (2)
[04:14:36] Timered checkpoint triggered.
[04:28:40] Writing local files
[04:28:40] Completed 75000 out of 2500000 steps (3)
-- clipped, following part of log starts August 9, 2008 ---
[13:32:08] Writing local files
[13:32:08] Completed 2450000 out of 2500000 steps (98)
[13:48:07] Timered checkpoint triggered.
[13:56:36] Writing local files
[13:56:36] Completed 2475000 out of 2500000 steps (99)
[14:12:36] Timered checkpoint triggered.
[14:21:07] Writing local files
[14:21:07] Completed 2500000 out of 2500000 steps (100)
[14:21:07] Writing final coordinates.
[14:21:08] Past main M.D. loop
[14:22:08]
[14:22:08] Finished Work Unit:
[14:22:08] - Reading up to 1136160 from "work/wudata_03.arc": Read 1136160
[14:22:08] - Reading up to 550576 from "work/wudata_03.xtc": Read 550576
[14:22:08] goefile size: 0
[14:22:08] logfile size: 134353
[14:22:08] Leaving Run
[14:22:12] - Writing 1830685 bytes of core data to disk...
[14:22:13] Done: 1830173 -> 1602329 (compressed to 87.5 percent)
[14:22:13] ... Done.
[14:22:13] - Shutting down core
[14:22:13]
[14:22:13] Folding@home Core Shutdown: FINISHED_UNIT
[14:22:15] CoreStatus = 64 (100)
[14:22:15] Unit 3 finished with 94 percent of time to deadline remaining.
[14:22:15] Updated performance fraction: 0.959979
[14:22:15] Sending work to server
[14:22:15] + Attempting to send results
[14:22:15] - Reading file work/wuresults_03.dat from core
[14:22:15] (Read 1602841 bytes from disk)
[14:22:15] Connecting to http://171.64.122.78:8080/
[14:22:41] Posted data.
[14:22:42] Initial: 0000; - Uploaded at ~58 kB/s
[14:22:42] - Averaged speed for that direction ~55 kB/s
[14:22:42] + Results successfully sent
[14:22:42] Thank you for your contribution to Folding@Home.
[14:22:42] + Number of Units Completed: 31
[14:22:46] Trying to send all finished work units
[14:22:46] + No unsent completed units remaining.
Below is the log for the first part of the next WU that shows the date
[14:22:46] - Preparing to get new work unit...
[14:22:46] + Attempting to get work packet
[14:22:46] - Will indicate memory of 1014 MB
[14:22:46] - Connecting to assignment server
[14:22:46] Connecting to http://assign.stanford.edu:8080/
[14:22:47] Posted data.
[14:22:47] Initial: 40AB; - Successful: assigned to (171.64.122.78).
[14:22:47] + News From Folding@Home: Welcome to Folding@Home
[14:22:47] Loaded queue successfully.
[14:22:47] Connecting to http://171.64.122.78:8080/
[14:22:47] Posted data.
[14:22:47] Initial: 0000; - Receiving payload (expected size: 239194)
[14:22:48] - Downloaded at ~233 kB/s
[14:22:48] - Averaged speed for that direction ~158 kB/s
[14:22:48] + Received work.
[14:22:48] Trying to send all finished work units
[14:22:48] + No unsent completed units remaining.
[14:22:48] + Closed connections
[14:22:48]
[14:22:48] + Processing work unit
[14:22:48] Core required: FahCore_78.exe
[14:22:49] Core found.
[14:22:49] Working on Unit 04 [August 9 14:22:49]