You'd have to change the meaning of ...
Actually, you wouldn't; it makes sense as it is (though it wouldn't be a real number, of course).
To try to illustrate: Say I want to place a linear order (a well order, in fact) on the nonnegative integers in the following way:
1 < 2 < 3 < 4 < .... < 0
In other words, the positive integers have the usual order amongst themselves, but 0, under this order, has been placed larger than all of the (infinitely many) positive integers.
So you could think of the digits in 0.000...1 as being indexed by the nonnegative integers under this under: There's a "0" in each position corresponding to a positive integer, and there's a "1" corresponding to the ultimate position of the zero.
(I would be uncomfortable writing this expression as 0.000...01, since that notation implies to me there is a "0" immediately preceding the "1"; of course, that can't be. Just like in the above ordering of the nonnegative integers, there is no positive integer immediately preceding the final "0".)
Another order you could place on the natural numbers:
1 < 3 < 5 < 7 < ... < 2 < 4 < 6 < 8 <... < 0
In other words, the odd positive integers in their usual order, followed by the even positive integers, followed by 0.
If you use this set to index a string of digits, you could have something like:
0.000...1111...2
(Informally: infinitely many "0"s, followed by infinitely many "1"s, followed by a final "2").