Yakima has hardware options for putting a kayak rack on a poptop roof.
Yakima racks aren't cheap, but they are always on sale 20% off when REI has
their sales.  I assume Thule has similar hardware options.

With two kayaks you may not want to raise the poptop with them on the roof.
I was doing it with a total weight up there of racks and saddles (maybe 10
lbs?) plus boat (47 lbs) plus a bag containing paddles and some other long
stuff (maybe another 10 lbs).  I couldn't life the poptop myself, nor could
anyone else I asked for help (though a few guys insisted they could) - with
two people it was easy to lift.  I don't think I'd do that with more weight
up there.

If you know Harvey Golden (Vanagon owner in Portland and also serious kayak
builder), he was lifting two kayaks on his, but they are skin-on-frames,
probably don't weigh more than 25 lbs each.

Joy

****************************************************************
Joy Hecht
and Matilda, 1989 Burgundy Vanagon

For musings about life and the vanadventures:
http://www.joyhecht.net

****************************************************************:::-----Orig
inal Message-----
:::From: Vanagon Mailing List [mailto:vanagon@GERRY.VANAGON.COM] On Behalf
:::Of Zoltan
:::Sent: Thursday, March 30, 2006 3:23 AM
:::To: vanagon@GERRY.VANAGON.COM
:::Subject: WTB roof rack for kajaks, etc
:::
:::Hi guys,
:::I would need to install a roof rack for two kajaks.  And what are the
:::ways to install it onot the Westy roof?  Where is the best to get it for
:::the right price?  I am in the Seattle area.
:::Zoltan