For loop problems, two deep

In this program, I have a function where I have two for loops. Here's an example:

"for (j = 0; j < 3; j++)
{
for (i = 0; i < 8; i++)
{
time = 1612 - (4 * i);
wait ();
}
if (j < 2)
{
time = 1588;
wait ();
while (incoming);
}
}"

Well, the software simulation works perfectly. However, when I try programming a chip and implimenting it, it gets stuck somewhere in this loop. Do any of you happen to know why? Thanks