Climate models consistently project a robust weakening of the Indonesian Throughflow (ITF) and the Atlantic meridional overturning circulation (AMOC) in response to greenhouse gas forcing. Previous studies of ITF variability have largely focused on local processes in the Indo-Pacific Basin. Here, we propose that much of the centennial-scale ITF weakening is dynamically linked to changes in the Atlantic Basin and communicated between basins via wave processes. In response to an AMOC slowdown, the Indian Ocean develops a northward surface transport anomaly that converges mass and modifies sea surface height in the Indian Ocean, which weakens the ITF. We illustrate these dynamic interbasin connections using a 1.5-layer reduced gravity model and then validate the responses in a comprehensive general circulation model. Our results highlight the importance of transient volume exchanges between the Atlantic and Indo-Pacific basins in regulating the global ocean circulation in a changing climate. Plain Language Summary The Indonesian Throughflow (ITF) is a key component of the global ocean circulation. By exchanging water between the low-latitude Indian Ocean and Pacific Ocean, the ITF has been suggested to play an important role in shaping global warming patterns in response to greenhouse gas forcing. Climate models consistently project the ITF strength to decline in the 21st century. Traditionally, changes in the strength of the ITF have been attributed to local processes, such as changes in precipitation and atmospheric winds. Here, we suggest that remote processes can also have a significant impact on ITF variability. In particular, we show that the projected weakening in the ITF during the 21st century could be tied to changes in the Atlantic meridional overturning circulation (AMOC). Through this transient version of the ocean's conveyor belt circulation, changes in the high-latitude North Atlantic (e.g., Arctic sea ice melt) can affect the climate in the low-latitude Indo-Pacific Ocean. An intriguing corollary is the potential to use the ITF to monitor or interpret long-term trends in the AMOC.