To determine which statements are not true for the five-kingdom classification proposed by R.H. Whittaker in 1969, let's analyze each statement one by one.
### Step-by-Step Solution:
1. **Statement (a)**: "The main criteria for classification include cell structure, thallus organization, mode of nutrition, reproduction, and phylogenetic relationship."
- **Analysis**: This statement is true. R.H. Whittaker's five-kingdom classification is based on these criteria.
2. **Statement (b)**: "All prokaryotic organisms such as bacteria, blue-green algae, and ferns are grouped together under kingdom Monera."
- **Analysis**: This statement is false. While bacteria and blue-green algae (cyanobacteria) are prokaryotic and belong to Kingdom Monera, ferns are eukaryotic and belong to Kingdom Plantae. Therefore, this statement is not true.
3. **Statement (c)**: "Chlamydomonas, Chlorella, and Spirogyra are placed in Algae within plants due to the presence of the cell wall."
- **Analysis**: This statement is true. Chlamydomonas, Chlorella, and Spirogyra are indeed classified as algae and are placed in the Plantae kingdom because they possess a cell wall.
4. **Statement (d)**: "Fungi are placed in a separate kingdom: Kingdom Fungi."
- **Analysis**: This statement is true. Fungi are classified in their own kingdom, Kingdom Fungi, which is distinct from plants and animals.
5. **Statement (e)**: "Paramecium and Amoeba are placed in the animal kingdom due to lack of cell wall."
- **Analysis**: This statement is false. Paramecium and Amoeba are classified under Kingdom Protista, specifically as protozoans, not in the animal kingdom.
### Conclusion:
The statements that are **not true** are:
- **(b)**: All prokaryotic organisms such as bacteria, blue-green algae, and ferns are grouped together under kingdom Monera.
- **(e)**: Paramecium and Amoeba are placed in the animal kingdom due to lack of cell wall.
Thus, the correct answer is that statements **(b)** and **(e)** are not true.