Fluid flow and carbonate recrystallization rates of deep-sea sediments from eight locations in the Equatorial Eastern Pacific were determined by using δ44/40Ca values of pore water and corresponding sediments. The studied drill sites of IODP Exp. 320/321 are located along a transect of decreasing crustal age and reveal different characteristic pore water depth profiles. The younger sites show an overall isotopic equilibration with the sediment in the upper part of the sedimentary column. In the lower part, the δ44/40Ca of the pore water increases back to seawater-like values at the sediment/basalt interface, forming a bulge-shaped pore water profile. The magnitude of the δ44/40Ca pore water bulge decreases with increasing age of the oceanic crust and sediment cover, resulting in seawater-like δ44/40Ca values throughout the sedimentary column in the oldest Sites U1331 and U1332. These findings indicate a seawater-like fluid input from the underlying crust into the sediment. Thus, after sedimentation, carbonate recrystallization processes start to enrich the pore water in 40Ca, and after a time of carbonate recrystallization and cooling of oceanic crust, a flow of seawater-like fluid starts to move upwards through the sedimentary column, enriching the pore water with 44Ca. We established a carbonate recrystallization and fluid flow model to quantify these processes. Our determined carbonate recrystallization rates between 0.000013e(−t/15.5) and 0.00038e(−t/100.5) and fluid flow rates in the range of 0.42–19 m*Myr−1 indicate that the fluid flow within the investigated sites of IODP Exp. 320/321 depends on the sedimentary composition and location of the specific site, especially the proximity to a recharge or discharge site of a hydrothermal convection cell.