What causes standing water on the floor boards of a 06 Lexus IS250

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Lexus IS250 repair manuals are available at the click of a mouse! Chilton's Lexus IS250 online manuals provide information for your car's diagnostics, do-it-yourself repairs, and general maintenance.
Chilton's Lexus IS250 repair manuals include diagrams, photos, and instructions you need to assist you in do-it-yourself IS250 repairs. ChiltonDIY online IS250 repair manuals cover automotive service and repairs, from diagnostic trouble codes and probable causes, electronic engine controls, and maintenance schedules, to brake and suspension issues, wiring diagrams and engine repairs, tune-up procedures, specifications, clutch and gearbox diagrams, and more.

2008 Lexus IS250 AC low pressure charging port is located on the driver side close to brake booster. I accidentally saw it while changing the O2 sensor.

Cannot be replaced without replacing the assembly. Sorry. Club Lexis has a thread found here http://www.clublexus.com/forums/is-second-generation/625770-is250-license-plate-bulb-diy-or-new-housing.html

You are possibly low on power steering fluid. Check the reservoir and top it up as needed. You will need to do this again after a short while, as air works its way out of the pipes.
Then you should think about why it got low to start with. It is possible the power steering gear has sprung a leak somewhere. A common place for that is the steering rack end seals.

I have on 07 is250 and the power windows and trunk release were not working. There is a trunk/valet button in the glove box that needed depressed in order to make them work again.

Low tire pressure in one of the five tires

I am guessing that you recently had a windshield replaced. If so they didn't seal it well and it leaks in there. You can go to a glass shop and have it re-sealed or you can buy sealer at most automotive stores and do it yourself.

The other option is that it is leaking in through the air intake between your hood and the windshield. That is the air intake for your heating and air conditioning. There are drains in the line that can get clogged up. If that is the case the best option is to take it to a repair shop.

check your thermostat and upper and lower hoses when your idling to see if coolant is passing through your engine