string is an alias in C# for System.String.
So technically, there is no difference. It's like int vs. System.Int32.
As far as guidelines, it's generally recommended to use string any time you're referring to an object.
e.g.
string place = "world";
Likewise, I think it's generally recommended to use String if you need to refer specifically to the class.
e.g.
string greet = String.Format("Hello {0}!", place);
This is the style that Microsoft tends to use in their examples.
It appears that the guidance in this area may have changed, as StyleCop now enforces the use of the C# specific aliases.
Assuming you're joining on columns with no duplicates, which is a very common case:
An inner join of A and B gives the result of A intersect B, i.e. the inner part of a Venn diagram intersection.
An outer join of A and B gives the results of A union B, i.e. the outer parts of a Venn diagram union.
Examples
Suppose you have two tables, with a single column each, and data as follows:
A B
- -
1 3
2 4
3 5
4 6
Note that (1,2) are unique to A, (3,4) are common, and (5,6) are unique to B.
Inner join
An inner join using either of the equivalent queries gives the intersection of the two tables, i.e. the two rows they have in common.
select * from a INNER JOIN b on a.a = b.b;
select a.*, b.* from a,b where a.a = b.b;
a | b
--+--
3 | 3
4 | 4
Left outer join
A left outer join will give all rows in A, plus any common rows in B.
select * from a LEFT OUTER JOIN b on a.a = b.b;
select a.*, b.* from a,b where a.a = b.b(+);
a | b
--+-----
1 | null
2 | null
3 | 3
4 | 4
Right outer join
A right outer join will give all rows in B, plus any common rows in A.
select * from a RIGHT OUTER JOIN b on a.a = b.b;
select a.*, b.* from a,b where a.a(+) = b.b;
a | b
-----+----
3 | 3
4 | 4
null | 5
null | 6
Full outer join
A full outer join will give you the union of A and B, i.e. all the rows in A and all the rows in B. If something in A doesn't have a corresponding datum in B, then the B portion is null, and vice versa.
select * from a FULL OUTER JOIN b on a.a = b.b;
a | b
-----+-----
1 | null
2 | null
3 | 3
4 | 4
null | 6
null | 5
Best Answer
One easy thing you can do is make sure your connection strings take advantage of the "Application Name" element.
When you look at things like profiling this will be much easier to differentiate.
Another good practice would be to ensure each app is connecting with it's own set of credentials.