With satellite observed Sea Surface Temperature (SST) accumulated for multiple decades, multi-time scale variabilities of the Indo-Pacific Warm Pool are examined and contrasted in this study by separating it into the Indian Ocean sector and the Pacific Ocean sector. Surface size, zonal center, meridional center, maximum SST and mean SST as the practical warm pool properties are chosen to investigate the warm pool variations for the period 1982–2018. On the seasonal time scale, the oscillation of the Indian Warm Pool is found much more vigorous than the Pacific Warm Pool on size and intensity, yet the interannual variabilities of the Indian Warm Pool and the Pacific Warm Pool are comparable. The Indian Warm Pool has weak interannual variations (3–5 years) and the Pacific Warm Pool has mighty interdecadal variations. The size, zonal movement and mean SST of the Indian Ocean Warm Pool (IW) are more accurate to depict the seasonal variability, and for the Pacific Ocean Warm Pool (PW), the size, zonal and meridional movements and maximum SST are more suitable. On the interannual scale, except for the meridional movements, all the other properties of the same basin have similar interannual variation signals. Following the correlation analysis, it turns out that the Indian Ocean basin-wide index (IOBW) is the most important contributor to the variabilities of both sectors. Lead-lag correlation results show that variation of the Pacific Ocean Warm Pool leads the IOBW and variation of the Indian Ocean Warm Pool is synchronous with the IOBW. This indicates that both sectors of the Indo-Pacific Warm Pool are significantly correlated with basin-wide warming or cooling.