| Competition: | Missouri Valley Conference |
| Season: | 1999 |
| Winners: | Missouri State |
| Continentalcup1: | MVC Tourney Winner |
| Continentalcup1 Qualifiers: | Missouri State |
| Continentalcup2: | To NCAA Tournament |
| Prevseason: | 1998 |
| Nextseason: | 2000 |
The 1999 Missouri Valley Conference men's soccer season was the 9th season of men's varsity soccer in the conference.
The 1999 Missouri Valley Conference Men's Soccer Tournament was hosted by Bradley and won by Missouri State.
See main article: Missouri Valley Conference Men's Soccer Tournament.