In a comment on my post How high and how fast?, Klaus Scheffler pointed out that the "tiny wiggles" in my CLK1 signal could be significant if they exceeded the gate-source threshold voltage of a transistor acting as a transmission gate. He'd experienced issues with this in his implementation, which uses SST215 MOSFETs. Although the datasheet for the Calogic SST215 gives the typical Vgs threshold as 1.0V, the minimum is only 0.1V. My implementation uses the NXP BSS83 with the same specs, so this is a real worry.
[Note to self: the SST211 minimum Vgs[th] is 0.5V, which could provide the needed margin.]
Although I haven't experienced this sort of problem, I've only assembled two of the five boards that will make up my i4004 CPU. Could a problem be lurking in my future?