Hi @Georgin Jacob I'm glad that you were able to resolve your issue and thank you for posting your solution so that others experiencing the same thing can easily reference this! Since the Microsoft Q&A community has a policy that "The question author cannot accept their own answer. They can only accept answers by others ", I'll repost your solution in case you'd like to accept the answer .
Error Message:
Could not connect to an Azure sphere device. Please check the device is correctly connected. Please run "azsphere device list-attached" to see the attached devices.
Solution:
The EEPROM with FTDI was blank when we got the custom board.
Programming the EEPROM according to the steps provided in this link : FTDI FT_PROG programming tool
enabled the system to get detected using the device using the command "azsphere device rescan-attached".
If I missed anything please let me know and I'd be happy to add it to my answer, or feel free to comment below with any additional information.
I hope this helps!
If you have any other questions, please let me know. Thank you again for your time and patience throughout this issue.