Xboxer wrote in post #5575198
(1) I don't want to change any parameters of "their" agreement relating to the website -- although it is a commercial endeavour, with no known limits on usage of contained imagery I "freely" produced. The spa bought a "package" deal from the website creator - I don't want to jeapordise or infuriate the spa client.
That burden shouldn't fall on you. If the web designer promised a client a Bentley at a real cheap price, its up to them to find and deliver it and eat the costs if they can't deliver as promised. They shouldn't go to the Bentley dealers asking them to cut their price to fix her problem. She owns it, not you, so you should keep that in mind when negotiating.
Xboxer wrote in post #5575198
(2) Any images which will be printed - not associated with the website, I believe, fall under my juristiction, and should have some limitations on the spa's commercial usage of them - allowing me to setup a specific liscense of use...... But, I think its probably too late for that know.
It's only too late if you already relinquished on that issue. If you haven't, you still have every right to tell the web designer she was in error giving all the rights away, as thats very unusual in commercial photography. Then work with her to find a solution that is agreeable to all concerned. But there is no reason why you should have to cave to their agreement, when you were never part of the negotiation.
If she doesn't get the point, tell her you just negotiated a price and signed a purchase and sale for her on a new house, and let her know she'll need to add the new payments to her budget 
Xboxer wrote in post #5575198
(3) Commercial contracts. You must have very unique contracts for each clients needs? Do you have a standard contract?
Basically, yes. I have about 15 templates I use for common stuff, but even those get edited and customized as needed. I have a notes file of 'contract language' that I can cut and paste from so I cover all the important points on each project, and can dump what doesn't apply.
Typically, I can usually take one of the templates with the basics for all jobs of that type, I cut/paste the appropriate template for the usage. I have one for editorial, national advertising, regional advertising, corporate marketing, publicity, product catalogs, etc. I then edit any changes to the usage, estimate terms, and job description, and its pretty much done.
On the more complex end for example, I just finished reviewing a contract for a client I will be shooting in the next two weeks. I did the above, made some substantial changes since its a celebrity shoot regarding usage and terms, then submitted it to client. Their marketing and PR departments made the first pass with me and we made a few changes. Then they sent it to their legal department, where they added a few changes to the project kill terms, usage rights, re-shoot terms, added a section on client privacy and a NDA agreement. I need to send that through my lawyer to make sure they didn't circumvent any of my terms either by accidental language, or perhaps even on purpose.
So yea, you really need to be flexible with contracts, as one size doesn't fit all.
Also, good points to bring up amfoto1.