Well. I noticed some things in TP:
1. The house that burns down in Kakariko (when you kill the dark bug). Well, do you remember the weird house in aLttP's Kakariko, with no roof? Could they be the same? Although, it would be ignoring the fact that it's not the same Kakariko since they are on different places relative to other places (such as Death Mountain, and the Castle)
2. Mother and Child Rocks. Could they be what becomes Mother and Child Isles in tWW? Ignoring the fact that the rocks are rather small (I can't even figure out what IS the rocks in Zora's domain)
In all games you can match the geography of Hyrule in some way, by just rotating stuff a bit. Zelda 2 is located northeast of Death Mountain and is called "North Hyrule". In Zelda I you just see south eastern Hyrule with a forest in the south east, a graveyard that could be a former Kakariko and a Death Mountain in the north. There seems to be two Lost Woods at different places in the series (although, one of them is called Forbidden Woods, I'm not sure?). Also, Kakariko seems to have moved (remember it was under construction in OoT). One thing that bugs me is that Zora's Domain in TP is way out of place too. In all other games it was far to the east on Death Mountain (both on Zelda 1 and aLttP) and goes down in rivers through Hyrule (out to Lake Hylie, although not visible on Z1). And where do you think the area around Eastern Palace fits in? I can't figure it out. Could've been a plain before?
Let's discuss about the geography of the Zelda series (and particularly those set in Hyrule) and how they match (and don't match! and try to explain it). I guess some theories about chronology in the Zelda games can be added too. (Although if it's becomes too much I will add "and Chronology" to the title)