I have tried generating 2 lists differing only in checking the box "Only include domains not flagged as dangerous by Google Safe Browsing". The one with the Google Safe Browsing option enabled time-outed.
My experience with Google Safe Browsing is that it allows only 10k queries per day, so unless Google granted Tranco an increased quota, this option should not be configurable for so large lists. Or maybe you got an exception from Google and it expired?