Hello,
For that I understood, your board is able to pass the stress test in Config Tools but is not able to pass the training when booting.
These two cases are different situations that could affect the final result, as @monica46cole mentioned, temperature could affect the signal integrity causing this behavior.
You could try to change the tunning with different settings and check if helps with your design:
ODTImpedance
Desired ODT impedance in Ohm. Valid values for DDR4=240,120,80,60,40. Valid values for DDR3L=high-impedance,120,60,40. Valid values for LPDDR4=240,120,80,60,40
TxImpedance
Write Driver Impedance for DQ/DQS in ohm (Valid values for all DDR type= 240, 120, 80, 60, 48, 40, 34)
ATxImpedance
Write Driver Impedance for Address/Command (AC) bus in ohm (Valid values for all DDR type = 120, 60, 40, 30, 24, 20)
Best regards.