I have a DF9NP 10MHz GPSDO that is based on a u-blox LEA-5S GPS receiver. Essentially, the LEA-5S outputs an 800Hz signal that is used to discipline a 10MHz VCTCXO with a PLL. The LEA-5S doesn’t have persistent storage, so an I2C EEPROM is use to store the settings across reboots.
Lately it seemed that the reading of the settings from the EEPROM had failed. The u-blox was always booting with the default settings. This prevents the GPSDO from working, since the default for the timepulse signal is 1Hz instead of 800Hz. Here is the summary of my troubleshooting session and the weird repair that I did.