Hi Scott
To answer your question, since you are out of warranty, I think it might be cheaper to just buy the exhaust system from overseas and get it installed at an exhaust shop. $5k is a lot, the JoeZ system is only around $2k I believe, if you ship it over. Factor in another $500 for installation and it's still only half the price that Lexus charges. However, some people only trust Lexus to touch their car. So it is up to you on that. If you don't have a mechanic that you trust, you might want to bring it back to Lexus. The ISF is a very rare beast, very few mechanics out there have even worked on one before. Then again, there is the port & polish (my car already came with that so I can't comment on the advantages of having that done).
The JoeZ exhaust is quite loud, you might want to consider this aspect before deciding. It does change the character of the car from "grand touring sleeper" to "Japanese muscle". If you are very sensitive to drone, it might become an issue.
In terms of performance gains, I did not notice much after doing the exhaust (I have the Borla, but I'm changing to the Meisterschaft system soon). It was the headers and changing of cats that gave the biggest performance gains. Before I did the headers, I could not keep up with a stock C63. After the headers were installed and the car got used to it, I was able to outpace a stock C63 without the performance pack, and stay on par with a C63 with the performance pack. The BMW M3 doesn't stand a chance in the straights anymore. The headers also changes the tone of the exhaust note. It makes it slightly "raspier" sounding, but it sounds awesome. You know the throttle blips that the ISF does? It becomes pure aural arousal once you have headers. When driving in the Valley, and you do the blip, people turn their heads because they think it's an exotic. Then they realise it's just a Lexus IS....haha!