In the Arabian Gulf, mangroves play a particularly important role in maintaining biodiversity. Water and intertidal sediments were collected from eight sampling locations in April 2017 to assess the environmental status of the mangrove forest in the Khor al Beida, Umm Al Quwain, which is one of the largest natural mangrove forests in the United Arab Emirates (UAE). Khor al Beida is also a breeding ground for the largest Gulf colony of a regionally endemic Socotra cormorant. Total metal concentrations of water and sediments were measured using Inductively Coupled Plasma Optical Emission Spectroscopy (ICP-OES) and ranged between 0.001–2.873 mg/L and 0.08–12683.02 mg/kg, respectively. Most metals were within permissible levels, except for copper, iron, aluminum, zinc, and nickel. Hazard Quotient calculations showed low risk to the ecosystem in relation to the presence of heavy metals, with the exception of zinc. Fifty-three diatom species of pennate benthic forms were identified in the intertidal sediments. For the first time in the UAE, diatom composition and diatom diversity values were quantitatively estimated in the surface sediments and a short sediment core. Overall, the assessment suggests that the mangrove forest is currently undisturbed and shows very little anthropogenic impact; yet, protection and conservation efforts are necessary in order to maintain its current status.