You can advance to the end of beta2 now yes. Also, that issue was a big issue, as you WERE supposed to give the box a 1-Up, but the coding had it give it an Oni Wine instead, which is due to me forgetting to fix that after moving items in the database. Also fixed the issues with Cirno's commands too in this patch. That was due to making everyone's skills just a Skill.
Also of note, 2 new items are now available in beta2; the Demon Repellent and Demon Charm. One halves random encounters, the other doubles random encounters. Dunno if they work yet or not, so there's something to test out for you guys! Also, Blue Magic system is fully functional now, though still don't know if I'll change some skills or add new ones yet.
Keep in mind, I HAVE NOT TESTED THE END OF BETA2! In other words, I have no idea how tough Eientei is going to be on the second run, as there ARE battles there now (those ghosts and Tewis that did nothing before? Oh, they do stuff now. And that one Tewi guarding a chest? She totally is a mini-boss that's guarding important stuff for Reisen. And there's a second room that's similar to that, but is a gauntlet run). Similarly, I do not know if the difficulty is too much or if the skills available are too strong/just right. We'll see I guess!