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Natural hives don't respawn but are generated with the chunk. The bee species you get depends on the type of hive; tropical hives only appear in jungles, so either go find a new one or write a Mystcraft age for it if you have a jungle biome page from a dungeon or want to generate a few ages until you come across one with libraries to get pages from. (If you do go the Mystcraft route, ALWAYS HAVE A LINKING BOOK WHEN GOING TO AN AGE (crafted from a single book, links to the spot on which you crafted it) and put the descriptive book for the age in a lectern or linkbook stand, which are craftable from wood.) For bee breeding you'll also want to make an Indexer soon, which can store an unlimited number of bees, and depending on what you're working on breeding possibly an Acclimatizer to change the humidity and heat tolerances of your bees.
One other helpful thing to make is an infinite inventory system. For that you need to make an enderchest (which needs blaze rods) and an ender pouch to link to it, a chunk loader, some pipes (I'd recommend RP2's Pneumatic Tubes) and a bunch of chests. Basically you put down the chunk loader to keep that spot in your base loaded, place the enderchest and link it to the ender pouch by right clicking the pouch on the chest, then attach the enderchest to the other chests with pipes. I usually use a Redpower Filter and Timer combination to pull a stack at a time from the enderchest, but you need a Diamond Handsaw and Alloy Furnace to make these, so a Buildcraft wooden pipe and redstone engine to draw from the enderchest might be more feasible for you depending on your current resources level. What this system does is pull anything you place in the ender pouch out of the linked enderchest and place it in one of the attached chests, so you can go mining or exploring or whatever without your inventory filling up with loot and necessitating a return home.
One other helpful thing to make is an infinite inventory system. For that you need to make an enderchest (which needs blaze rods) and an ender pouch to link to it, a chunk loader, some pipes (I'd recommend RP2's Pneumatic Tubes) and a bunch of chests. Basically you put down the chunk loader to keep that spot in your base loaded, place the enderchest and link it to the ender pouch by right clicking the pouch on the chest, then attach the enderchest to the other chests with pipes. I usually use a Redpower Filter and Timer combination to pull a stack at a time from the enderchest, but you need a Diamond Handsaw and Alloy Furnace to make these, so a Buildcraft wooden pipe and redstone engine to draw from the enderchest might be more feasible for you depending on your current resources level. What this system does is pull anything you place in the ender pouch out of the linked enderchest and place it in one of the attached chests, so you can go mining or exploring or whatever without your inventory filling up with loot and necessitating a return home.