Additions
| from | Name | Pos | Team | Team | ||
|---|---|---|---|---|---|---|
| 01/2000 |  | Andrei Stepanov | DF |  | JK Tervis Pärnu | Tervis Pärnu |
| 01/2000 | | Märt Kosemets | MF | | JK Tervis Pärnu | Tervis Pärnu |
| 01/2000 | | Meelis Rooba | MF |  | Tulevik Viljandi | Tulevik |
| 01/2000 | | Juri Tiismann | MF | |||
| 01/2000 | | Tiit Tikenberg | MF | |||
| 01/2000 | | Janno Jürisson | FW | | Tulevik Viljandi | Tulevik |
| 01/2000 | | Joel Lindpere | FW | | JK Tervis Pärnu | Tervis Pärnu |
| 01/2000 | | Tarmo Rüütli | MA | | Tulevik Viljandi | Tulevik |
| 09/1999 |  | Zaur Tagizade | FW |  | Neftchi Baku PFK | Neftchi Baku |
| 07/1999 | | Kert Kütt | GK | |||
| 07/1999 | | Urmas Rooba | DF |  | FC Kuressaare | Kuressaare |
| 07/1999 | | Aivar Anniste | MF | | JK Tervis Pärnu | Tervis Pärnu |
| 07/1999 | | Marko Kristal | MF |  | IF Elfsborg | IF Elfsborg |
| 07/1999 |  | Tomas Ražanauskas | MF |  | Servette FC | Servette |
| 07/1999 | | Aleksander Saharov | FW |
Departures
| from | Name | Pos | Team | Team | ||
|---|---|---|---|---|---|---|
| 01/2000 | | Sergei Hohlov-Simson | DF | | FC Kuressaare | Kuressaare |
| 01/2000 | | Urmas Kaal | DF | | FC Kuressaare | Kuressaare |
| 01/2000 | | Marek Lemsalu | DF | | Tulevik Viljandi | Tulevik |
| 01/2000 | | Janek Meet | DF | | Tulevik Viljandi | Tulevik |
| 01/2000 | | Priit Reiska | DF | | FC Kuressaare | Kuressaare |
| 01/2000 | | Marko Kristal | MF |  | FC Lahti | FC Lahti |
| 01/2000 | | Sergei Terehhov | MF |  | SK Brann | SK Brann |
| 01/2000 | | Zaur Tagizade | FW |  | FK MOIK Baku | MOIK |
| 01/2000 | | Vjatšeslav Zahovaiko | FW |  | Warrior Valga | Warrior |
| 01/2000 | | Indrek Zelinski | FW | | FC Lahti | FC Lahti |
| 01/2000 |  | Teitur Þórðarson | MA | | SK Brann | SK Brann |
| 08/1999 |  | Trond Haugland | DF |  | Ionikos Nikea | Ionikos |
| 08/1999 | | Martin Lepa | DF | | FC Kuressaare | Kuressaare |
| 08/1999 | | Tomas Ražanauskas | MF |  | Malmö FF | Malmö FF |
| 07/1999 | Mark Svets | MF | | FC Kuressaare | Kuressaare | |
| 07/1999 | | Andres Oper | FW |  | Aalborg BK | Aalborg BK |