How would they see my name digital2ape on hundreds of computers? Is it because all the set-up accounts lead to the same BitWallet? Hundreds of them will be under the same IP, and hundreds of others won't. I was under the impression that each PC would have their own seperate user account in the pool. Is there a master account they all link to?
I don't know of all pools, but of all I've been on, you have a master account you control (this is where all the BTC/LTC/ETC goes -- pool ops typically hold the money in your master account until you request a withdrawal to a wallet), and then you have workers (sometimes referred to as "slaves") which are the PCs. However, I don't believe there's any reason you couldn't just have all mining clients point to the same worker. You could start your own mining server, but then all of your "legitimate-use PCs" would point somewhere specific and possibly associated to you, a legitimate user.
Typically, the scheme to connect to a server in your mining client (this varies both by mining client and pool) email@example.com:8080, and then a person creates a different worker for each PC, or each GPU, or each CPU, or whatever they want -- but AFAIK, that's just for the purpose of measuring performance of each component. You could start an account on a pool with just one worker and point all of the mining clients to the same worker/slave account.