Here I am with more suggestions
- Abandon the Instapaper app on iPad and login to Instapaper in iPad Safari. If you have the DEVONthink to Bookmark bookmarklet among your bookmarks, then you can easily send a bookmark of the current page you’re viewing at the Instapaper site to DTTG. Later, sync to the desktop and convert these to PDFs or webarchives, or whatever. (Unfortunately, the other more functional bookmarklets … like save to PDF … don’t work on iOS … but see [3] below)
- Login to the Instapaper site in DTTG itself (via a bookmark). Browse and collect new bookmarks for pages you want to keep, as with [1] above.
- Login to the Instapaper site in ReadleDocs, PDFExpert, iAnnotate or GoodReader (a few among many options that are better at capturing browsed pages than DTTG). When you find a page you want, save it as a PDF in one of those apps. You can transfer these PDFs to DTTG, or just sync the app back to the desktop (method varies by app).
- If you’re couch surfing and connected to your local network, use Printopia to print directly to the DEVONthink inbox (or wherever) on your desktop.
The last is my own favorite … printing from Instapaper on the iPad results in very nicely formatted documents. The PDF-reader options in [3] can be useful if you want to annotate the thing you just saved as a PDF.
Unfortunately, Mr Reader doesn’t offer any Print or Open In options, but one can send to Instapaper, FWIW