Yes and no. It has nothing to do with shorting. Different brokerages have different policies. Etrade almost never restricts anything; TDA is the most likely to apply restrictions. It seems that TDA usually restricts if the stock has a DTC chill, but they may do it for other reasons as well.
The bottom line is that they're protecting their own interests. They want you to call so if anything goes wrong later on, they can say you called and specifically asked to have the order placed.