Do we know Perle holds dual citizenship with Israel? Some nutcases occasionally attribute it to most Jews in government (or not in government), I've seen a reference that a Canadian paper accused him of being an Israeli citizen in 96, but with nothing to back it up.
Yes. The one case I've seen that seems relevant was some Irishman with a double set of passports, who didn't declare his double set of passports. This was found to be in violation of thee DoD policy, and the clearance he sought was not granted.
Note that there is no "must not issue" here, an applicant can apply for approval for his foreign passport, which this applicant had not done.
Do we know Perle holds dual citizenship with Israel?
Not really. To be a dual citizen, in this sense, requires two valid passports. And yes, many nutcases take the Israeli right to citizenship for Jews to be dual citizenship.
In any case, Perle had clearances up his nose until he retired. And his retirement had nothing to do with impropriety, but rather that he was writing a book and preparing other publicity - in short, he wanted to be free to speak his mind. Which, incidentally, is also why Franks retired.