| Competition: | Liga Indonesia Premier Division |
| Season: | 1998–99 |
| Dates: | 1 November 1998 – 9 April 1999 |
| Winners: | PSIS 1st Premier Division title 2nd Indonesian title |
| Continentalcup1: | Asian Club Championship |
| Continentalcup1 Qualifiers: | PSIS |
| Continentalcup2: | Asian Cup Winners' Cup |
| Continentalcup2 Qualifiers: | Persebaya |
| Relegated: | Persita Persikabo Persiba |
| Matches: | 153 |
| Total Goals: | 364 |
| League Topscorer: | Alain Mabenda (11 goals) |
| Biggest Home Win: | Persija 5–0 Petrokimia Putra (13 December 1998) |
| Biggest Away Win: | Medan Jaya 0–3 PSDS (15 November 1998) Persiraja 0–3 PSDS (14 February 1999) |
| Highest Scoring: | Semen Padang 6–1 Petrokimia Putra (26 March 1999) |
| Prevseason: | 1997–98 |
| Nextseason: | 1999–2000 |
The 1998–99 Liga Indonesia Premier Division was the fifth season of the Liga Indonesia Premier Division, the top division of Indonesian football. The season began on 1 November 1998 and ended on 9 April 1999. The league was made up of 28 clubs. PSIS won the title after beating the defending champions, Persebaya 1–0 in the final.
The number of teams dropped from 31 to 28 this season.
| West Division | |||
|---|---|---|---|
| Team | Location | Stadium | |
| Medan Jaya | Medan | Teladan | |
| Persib | Bandung | Siliwangi | |
| Persija | Jakarta | Lebak Bulus | |
| Persiraja | Banda Aceh | Haji Dimurthala | |
| Persita | Tangerang | Benteng | |
| Petrokimia Putra | Gresik | Petrokimia | |
| PSBL | Bandar Lampung | Pahoman | |
| PSDS | Deli Serdang | Baharuddin Siregar | |
| PSMS | Medan | Teladan | |
| PSP | Padang | Haji Agus Salim | |
| Semen Padang | Padang | Haji Agus Salim | |
| Central Division | |||
|---|---|---|---|
| Team | Location | Stadium | |
| Arema | Malang | Gajayana | |
| Barito Putera | Banjarmasin | May 17th | |
| Gelora Dewata | Denpasar | Ngurah Rai | |
| Pelita Bakrie | Lebak Bulus | ||
| Persebaya | Surabaya | Gelora 10 November | |
| Persema | Malang | Gajayana | |
| Persikab | Cimahi | Sangkuriang | |
| Persikabo | Bogor | Pajajaran | |
| Persikota | Tangerang | Benteng | |
| PSIM | Mataram | Mandala Krida | |
| PSIS | Semarang | Jatidiri | |
| East Division | |||
|---|---|---|---|
| Team | Location | Stadium | |
| Persiba | Balikpapan | Persiba | |
| Persipura | Jayapura | Mandala | |
| Persma | Manado | Klabat | |
| PSM | Ujung Pandang | Andi Mattalata | |
| Pupuk Kaltim | Bontang | Mulawarman | |
| Putra Samarinda | Samarinda | Segiri Samarinda | |
----4–4 on aggregate. Persiraja won on away goals and retained their spot in the Premier Division, Persita were relegated.
----Gelora Dewata won 7–5 on aggregate and retained their spot in the Premier Division, Persikabo were relegated.
----
See main article: 1999 Liga Indonesia Premier Division Final.
The following is a list of the top scorers from the 1998-99 season.[1]
| Rank | Player | Club | Goals |
|---|---|---|---|
| 1 |  Alain Mabenda | PSDS | 11 |
| 2 |  Musa Kallon | Persebaya | 8 |
| 3 |  Jean Michel Babouaken | PSMS | 7 |
 Stephen Weah | Persikota | 7 | |
 Tugiyo | PSIS | 7 | |