We are not creating these theories because we don't want it to be Obito, we just want it to make sense. Therefore, we are making predictions and theories to make up for the fact Tobi can be Obito. I'm going to address the plotholes and the answers to these plotholes that have been given on the forum.
1. I'm sorry but nobody can justify Obito's change of heart with his views towards the Ninja world. When he died he seemed completely at piece with his sacrifice. He didn't like the idea of a Shinobi who abandoned their teammates but kakashi didn't abandon Obito. Obviously Obito survived the boulder because of his age, but nobody knows how. I find it hard to believe that Obito activated his Mangekyou at that time. I believe somebody must have helped Obito escape, but i don't know who. Some people suggest Madara and Izuna but how would they still be alive in the first place. Zetsu seems the most practical but there is a plothole for this theory as well.
2. If Zetsu is the one who helped Obito escape the boulder, did Zetsu also repair Obito by giving him Harishima's cells. Everyone has noticed the white goo pouring from Obito's arm. The plothole is that if this is the case, and Tobi did reconstruct Obito in some way why did Tobi do his 'good boy' disguise around Zetsu. The first ever appearnce of Tobi was his good boy persona when he collected Sasori's ring. He was only with Zetsu at the time so why put on the disguise if Zetsu already knows who you are.
3. Tobi has the most knowledge of anyone in the manga. He knows about the history of the SO6P, the uchiha, the senhu, Madara, izuna and Itachi. Obito was not alive at this time so poeple are saying Madara must have passed on the information to Obito, but Madara would not be alive at the time.
4. People saying there are two Tobi's because the time lines don't fit and there are inconsistencies with Tobi's character. Occarding to Obito himself, his first attack against the leaf after his defeat against the first was at Naruto's birth. The Tobi that fought Minato has to be Obito because he has has hair and also has the kamaui technique. However after this, Tobi also said he helped Itachi during the uchiha clan massacre and controlled the Yagura. However, in the flash back Tobi looks allot like Madara rather than Obito. My question is if it is Madara how is he alive and why is he wearing a mask. This Two Tobi theories are very reliant on hair, but think what other character has changed their hair in the series, nobody has! This Whole two Tobi theory can be dismissed though because when Kisame saw long haired and short haired Tobi he thought they were the same person so maybe Obito just grew his hair lol. In relation to tobi's eyes people wont to know why he had two sharingans when he faced Konan and how he activated his sharingan? Well we know Tobi has a lab of sharingans but we dont know how, I though Danzo had all the sharingans from the massacre. I also guess we will find out how Obito gained his magekyou in the next few chapters.
5. Obito could not have given Nagato the rinnegan because he should have even been alive. This further supports Madara as the second Tobi, but again how would Madara have still been alive.
6. Just because tobi revealed himself to be Obito people seem to forget some vital information in the previous chapter. In 598 kakashi asked where Tobi got his sharingan. Tobi said he obtained it at the kannabi bridge. If it was Obito why would he say he obtained it? It would be his own sharingan! This supports the two Tobi theory and supports somebody controlling Obito's body.
What do you guys think of these plotholes? do you think Kishi will be able to adress them all? I think the mystery of Madara will help explain the mystery of Obito, somehow lol.