I've definitely experienced reading a sentence, knowing all or almost all the words in it, and still not being able to assemble the meaning of the sentence due to an unfamiliar grammar structure. Many times.
I think the best way to tackle this is to just try and try again: read the sentence a second time, read the next sentence and see if you can understand the previous sentence with the added context, or just be content with an incomplete understanding; maybe that grammar usage will be easier to understand the next time you see it. Another good way is to read textbooks. Textbooks are great for grammar (although spaced repetition tends to work better for vocabulary).
Interesting piece of information about textbooks. I haven't tried that.
Concerning your tool, how well does the word segmentation of jieba work in your experience? I tried a few, but at the end I always returned to http://mandarinspot.com/annotate
(Edit: because I can add whitespaces to segment words manually if I see that the output doesn't make sense)
I think the best way to tackle this is to just try and try again: read the sentence a second time, read the next sentence and see if you can understand the previous sentence with the added context, or just be content with an incomplete understanding; maybe that grammar usage will be easier to understand the next time you see it. Another good way is to read textbooks. Textbooks are great for grammar (although spaced repetition tends to work better for vocabulary).