You should be able to sue for any quantity of shares, just as you can request a certificate for any number of shares. In other words: If you own 1000 shares of google, you can request a certificate for 500 shares and leave 500 in street name, regardless of how many transactions it took to accumulate your holdings.
You will, however, have to send a demand letter. Write a letter, demand a certificate for the number of shares you want and add the punitive damages - Send the letter register mail and "return receipt requested". File 30 days after they sign for letter and you should be golden. . .
***As earlier stated - Run EVERYTHING through CH***
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