Try to consolidate your trip by geographically grouping them to minimize criss-crossing, then perhaps look into regional passes. Prior post mentioned JR West (in Kansai region) pass which I had used, is a great pass for value and the sights that it covers. You can get up to 4-day pass, then add as you need to (1, 2, 3 and 4 days).
Before you jump on a JR 7-day pass, do calculate the individual trip cost first to see if it pays to get the pass.
If you at least do a round trip NRT-Osaka within 7 days, then that alone justifies a 7-day pass.
So, try to consolidate your itin, then get out the calucator.