Mangrove productivity depends on the storage of nutrients and elements. Elemental concentrations were examined in leaves, roots, and sediments for three age stands (15, 25 years, and VJR) of Rhizophora apiculata in the Matang Mangrove Forest Reserve (MMFR). Six compartments with two compartments each for each age group were used to analyze sixteen elements. Four types of elemental patterns were examined with decreasing order during analysis: (1) Cd < Cu < Pb < Zn < Mg < Mn < Fe < K < Na < Ca and P% < S% < N% < C% in leaves, (2) Cd < Pb < Cu < Zn < Mg < Mn < Fe < K < Na < Ca and P% < S% < N% < C% in roots, (3) Cd < Pb < Cu < Zn < Mg < Mn < K < Fe < Na < Ca and P% < N% < S% < C% in sediment samples and (4) Cd(S) < Pb(S) < Cu(S) < Zn(S) < Mg(S) < Mn(L) < K(L) < Fe(S) < Na(R) < Ca(R) and P%(S) < S%(S) < N%(L) < C%(R) collectively for all samples. Evidence that elements do not store primarily in above-ground biomass can be found in the observation that elements are stored more in sediment and roots. The outcome of the present study shows that the rate of increase of elements in trees (leaves and roots) was less as compared to sediments, where the elemental concentration increased considerably with time. Elemental concentration comparison within three age classes showed that C, N, and S were significantly different in all three types of samples. The δ15N ratios showed positive values in all six compartments which supported the concept that the δ15N ratio could not be observed in N concentration in this study. The δ13C values showed more negative values in all six compartments which represented less salinity and a freshwater intake. The S, P, and heavy metals concentrations were high. The concentrations of Cd, P, N, C, and S in the sediment influenced variations in four compartments in accordance with the three mangrove age groups. The results of this study can be utilized to create management plans for MMFR and conduct risk assessments of the elements’ concentration in sediment.