I'm not sure that I'm saying anything that hasn't already been said, but:
Choices of breed, auspice and tribe are supposed to be role-playing choices, rather than optimization choices. They certainly have optimization/character creation effects, but at base they are about what kind of character you're going to play and their role in society. (In fact, the first time I played WoA, I flat out said to my players "Okay, the Ahorun is a Fighter, the Ragabash is like a Thief, the Theurge is like a Mage and the Philodox is like a Cleric, etc.")
A Ragabash SHOULDN'T have the same Rage as a Ahroun, because that's not his role in Garou society. He's a Tricker/Sacred Clown, while the Ahroun is a straight-up Warrior. Saying that they should have the same Rage would be like saying that the Bard should have the same base attack bonus as the Fighter in D&D. You have the option to try take your character in that direction, but it's going to cost you.
As for Willpower, some tribes are more about keeping their animal sides in check than others. A Red Talon will give into it's Rage more often than a Silver Fang or Shadow Lord because that's the philosophy of the Red Talons. With as important as Willpower is to the system and to Garou in particular, this is probably the second most 'unbalanced' aspect, powerwise.
Gnosis represents the connection that the character has to the spirit world. Humans are just that more cut off from it then Lupus or even Metis breeds. It's not a balance thing, it's just a conceit of the world established by White Wolf.
If you consider the Gifts as well, you can see that they are about operating in that particular 'sphere of influence.' Homid Gifts are about using their connection with the human world for results; Theurge Gifts are about contacting the Spirit World; Bone Gnawer Gifts are about surviving in the Urban Wilderness. If you are looking at the system from a purely combat point of view, some Gifts are obviously 'better' than others. But the out-of-combat Gifts still have their uses.
TL;DR As stated above, the traits between Breeds, Auspices and Tribes are not 'balanced' as we would think of them. White Wolf justifies this by saying that each particular choice represents a role/function in Garou society and the trait differences are supposed to reflect those roles. Freebie points let you adjust the choices you've selected, but you are not going to be able to specialize in two separate roles.
If you want to try to 'balance characters' you could figure out an average of Gnosis, Rage and Willpower and then let the players decide on what they want. For example, you might find the average Gnosis between the three breeds is 3, the average Rage is 2 and the average Willpower is 3. (Numbers are off the top of my head.) Then you could say to player "Okay, you have 9 points to split between Gnosis, Rage and Willpower. Each one needs a dot." That would be one house rule option, but you'd lose out on some of the 'flavor' of the game.