Water in Air Conditioning System

[LaserLikeFocus]

Please help

1. Not the heater core leaking. Water is not coloured, no loss of fluid.
2. Possibly cowling needs serious reattachment, as I have had new windows.
3. LS 07 Focus which I bought new in May 2007.
4. Evidence of water above heater matrix.
5. Pools of water in footwells after carpets removed - literally litres.
6. Rust indicates along with wet foam seal around aluminium pipe, that water is draining from air con into carpets either side of 'drivetrain" into and under carpets. Also kick panels wet on lower half.
7. I have removed the dash but can't remove the sub dash. I cannot locate the "7 mm water pipe" which can be cleaned for an "easy solution"
8. Water collects after rain, even after cowling was reattached properly (no sealants though).
9. Suspect water entering air con inlet, however, car has done 206,000 km and there could be a crack in the metal work.

Is there a solution or do I need to give up and farm this out? Which professional would best deal with this?