Hi MSG -
The odd overall shape of the stitched image that you posted says that there were substantial aiming errors among its component images.
If you were trying to use one of the Foba, or any other ball head (like
this one), I can understand how it would be frustrating / time-consuming because rotations around the optical axis of the lens are not constrained when using a ball head. Instead, for panos, is is preferable to use a standard pan-tilt head (like
this one or even
something like this) that, (a) prevents rotation around the optical axis of the lens, and (b), with the aid of
an auxiliary bubble level, one can rapidly build up a large, nicely aligned and matched array of component images. Once the initial leveling of the tripod is done, I can usually knock off around one image ever 10 or 15 seconds using a pan-tilt head. I use an old Gitzo pan-tilt head on an even older (LOL) but very robust studio tripod when I'm shooting panos. If one is really into panos, a computer driven mechanical drive mechanism (eg, Gigapan) will save you lots of angst, LOL.
BTW, as I'm sure you know, the fore-aft nodal point adjustment plate is only critical when the closest object in the scene is under 10 or so meters away. With images like the trees that you posted (which are at a reasonable distance), you'll have more problems with wind induced motion making life difficult for your stitching software than with the rotation point being off by a few cm.
Sorry for the above digression from your original question about warping in software, but I find that it's always better to attack a problem like this at its source (ie, when taking the shots) rather after-the-fact, with general purpose warping tools.
So, with respect to warping, although you didn't say it explicitly, it sounds like you would like the ground to be level, and the trunks of all the trees to be vertical, not converging as you go towards the zenith. I find that if I gather the component images correctly, it's much easier to let dedicated pano software perform the correct geometric projection to retain verticals rather than doing it after the fact using PS's native warping tools. Here is a
nice intro article on projections. Note the comment in the article about the extreme loss of resolution in cases like yours.
BTW, what stitching SW are you using? I find that PTgui is much, much better than the native stitching tool provided in PS. Somewhere there is an even better description of the various projections as applied to PTgui, but unfortunately, I can't locate it at the moment.
HTH,
Tom M