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Glasshouse farming is one of the most intensive types of production of agricultural products. Via this process, consumers have the ability to consume mainly off-season vegetables and farmers are able to reduce operational risks, due to their ability to control micro-climate conditions. This type of farming is quite competitive worldwide, this being the main reason for formulating and implementing assessment models measuring operational performance. The methodology used in this study is Data Envelopment Analysis (DEA), which has wide acceptance in agriculture, among other sectors of the economy. The production protocols of four different vegetables—cucumber, eggplant, pepper, and tomato—were evaluated. Acreage (m2), crop protection costs (€), fertilizers (€), labor (Hr/year), energy (€), and other costs (€) were used as inputs. The turnover of every production unit (€) was used as the output. Ninety-eight agricultural holdings participated in this survey. The dataset was obtained by face-to-face interviews. The main findings verify the existence of significant relative deficiencies (including a mean efficiency score of 0.87) as regards inputs usage, as well as considerably different efficiency scores among the different cultivations. The most efficient of these was the eggplant production protocol and the least efficient was that used for the tomato. The implementation of DEA verified its utility, providing incentives for continuing to use this methodology for improving land management decision making.