In Tunisia, the olive oil industry holds significant importance in economic, environmental, and social aspects. Olive trees cover 36% of the total agricultural land and make up 79% of the area committed to tree farming. Notably, 95% of Tunisian olive farming is traditional, relying on dry land cultivation and minimal chemical fertilizers input. Consequently, Tunisia is recognized as one of the leading global producers and exporters of organic olive oil. The country produces the fourth-largest amount of olive oil in the world (193,700 t per year), and the olive industry supports 65 percent of all agricultural operators and more than one million people directly or indirectly [
1,
2]. A total of 196,000 tons of olive oil were expected was produced between 2015 and 2019; 165,000 of those tons were exported, accounting for 84% of the total amount. The volume of oil exported by Tunisia represents 20% of olive oil world exports. Both in terms of quantity and dollar value, the export of olive oil leads all other agricultural and food exports to Tunisia and accounts for more than half of those exports' overall value [
3,
4]. Notably, 95% of Tunisian olive farming is traditional, relying on dry land cultivation and minimal chemical fertilizers [
1,
4]. Consequently, Tunisia is recognized as one of the leading global producers and exporters of organic olive oil. However, despite the success of the olive oil industry, there are also challenges facing olive growers in Tunisia. The national production of olive oil experienced, during the 2022/2023 campaign, a drop of 25% compared to the past campaign, to reach 180 thousand tons. The production is below the national average recorded over the last decade, which is estimated at 211,000 tons [
5]. One of the most significant challenges is the threat of climate change as well as the lowest soil organic matter content and acceleration of their degradation factors [
6,
7]. This has led to a decrease in olive yields, as well as an increase in pests and diseases, affecting the sustainability of the olive production system and environment security. Meanwhile, Olive productions systems differ from the north to the south Tunisian zone, due to climatic condition, mainly rainfall. In the north, olive production is conducted as mono-cropping and represents the third speculation, after wheat and animal production. The olive crop is marginalized and is generally cultivated as mono-culture in bad soil quality under high slope, with low recorded yields of olive. While, olive oil produced from Chétoui cultivar has a very good chemical and sensory quality attributes [
8,
9]. More recently, the agricultural ministry has programmed in the north of Tunisia, the extension number of olive trees by about 10 millions trees between 2020-2030 years. To improve the olive oil production under organic farming system, increased the olive ecosystem productivity (production of animal feed, industrial crops, human food) and preserve the environment, the intercropping using different cover crops species (grasses, legumes) will be the most sustainable technical solutions [
10,
11]. Several studies have indicated that cover crops improve agricultural productivity, with many focusing on biomass production, physical, chemical and soil biological properties. Cover crops root growth may provide soil benefits such as increased soil organic carbon content, accessible nutrients, and soil aggregation [
12]. Annual crops association to perennial trees play a significant role in soil-based ecosystem services because of above- and below-ground organic inputs that supply the nutrients and carbon substrates required by soil organisms engaged in carbon transformations and nutrient cycling [
7]. When organic inputs break down, decomposer organism’s work together to fragment organic fraction, resulting in C transformations (e.g. termites, millipedes, mites, and earthworms). C transformations and nutrient cycling occur through the coordinated interaction of decomposers and nutrient transformers and are treated here as a functional continuum [
11,
12]. This transformation in turn facilitates the enzymatic action by fungi and bacteria that results in the release of nutrients to the soil matrix, loss of C to the atmosphere, primarily as CO
2, and the synthesis of soil organic matter [
13]. The use of cover crops in agriculture has been shown to be an effective method for mitigating soil erosion and nutrient loss. Various studies have demonstrated the ability of cover crops to significantly reduce rill erosion, sediment transport and enhancement of surface roughness as well as promotion of water infiltration [
14]. Additional physical characteristics that can be improved by the implementation of cover crops are increasing aggregate stability and enhancing hydraulic properties by protecting the soil surface from raindrop impact, increasing macroporosity and pore connectivity [
15]. Cover crops can alter soil properties by increasing organic matter in high C:N ratio mixtures, thereby increasing soil nutrients available for subsequent crops. Cover crops also increase N availability through biological N fixation and retain excess soil N for the following growing season [
16]. Because CCs (cover crops) increase soil C and N content, they help reduce the harmful effects of global warming by increasing the sequestration of atmospheric CO
2 and N
2O [
17]. Combined with conservation tillage, CCs contribute to a system that improves soil quality and crop production [
18]. It has been found that the use of legumes as cover crops in olive grove has beneficial effects on soil quality as well as olive tree performances [
7]. But, theses effects depends largely on the cover crops species and the primary dry matter production [
16,
17]. For instance, cover crops increased olive rhizospher soil's bacterial and fungal diversity. These changes in microbial diversity were positively related to an increase in soil organic matter content and the decomposition of complex polymers in olive orchards [
19,
20,
21]. Soil enzyme activities are fundamental regulator of litter decomposition and may significantly influence the fractions of labile organic carbon on the soil [
22], the biological nitrogen fixation, and the immobilization of nutrients. Cover crops incorporation in the soil stimulated a significant increase in the soil enzymatic activities [
23]. Annual cover crops increased activities of most soil enzymes and were correlated with microbial biomass [
24,
25]. Among the most studied soil enzymes, we found β-glucosidase, phosphatase, dehydrogenase which intervene in the C, N an P cycles [
26]. Metabolic activity of microorganisms can be evaluated using different techniques such as cell cultures, microbial biomass, enzyme activity and recently by community level physiological profiling (CLPP). CLPP is based on the carbon source utilization [
27]. The aim of the present study was to boost the olive ecosystem production using different cover crops species (spontaneous seeds, grass, legumes and their mixture) compared to periodic tilled soil, and to assess their impacts on primary production, carbon fixation, nutrient status and various biological indicators of soil quality during two consecutive cropping seasons s (2021/2022). The activities of the most soil enzymes (β-glucosidase, phosphatase, dehydrogenase and arylsulphatase) representative of C, N, P and S cycles were estimated. Soil microbial diversity was also estimated by Biolog-EcoMicroplates method in the second cropping seasons in mature olive orchards (cv.Chétoui) under rainfed conditions in Northern Tunisia.