Thanks for your answer. I reflashed eeprom already with my tools. I worked around 5 hours on the board and have more information now.

The RO signal from chips 65 and lower is 1,8 volt and is fine. The clk signal is fine till chip nummer 61, this is the first chip in the last voltage domain. The voltage of clk is 0 v on chips 61 and 1,8 v on chip 62 0v on chips 63 1,8 v on chip 64 and i am unsure on chips 65. I replaced al the 5 chips of the last voltage domain already but nothing helps.  I think the strange issue with the clk voltage is connected but i do not know how.